ID KN190510; SV 1; linear; genomic DNA; CON; MAM; 11484 BP. XX AC KN190510; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257388, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-11484 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-11484 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; e808f0b9957815b78984ac29670a8a5d. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..11484 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 2994..3494 FT /estimated_length=501 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 10046..10065 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 10570..10738 FT /estimated_length=169 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02315837.1:1..2993,gap(501),ABVD02315838.1:1..6551,gap(20), CO ABVD02315839.1:1..504,gap(169),ABVD02315840.1:1..746) // ID KN190511; SV 1; linear; genomic DNA; CON; MAM; 595190 BP. XX AC KN190511; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257389, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-595190 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-595190 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 8031b9798b0d5ee7e341b954ce63f3c6. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..595190 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 115900..116013 FT /estimated_length=114 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 192475..192494 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 195010..195029 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 238937..238956 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 261702..261721 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 274956..274977 FT /estimated_length=22 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 334584..334603 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 335096..338602 FT /estimated_length=3507 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 484840..484859 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 485362..485381 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 492585..492761 FT /estimated_length=177 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02315841.1:1..115899,gap(114),ABVD02315842.1:1..76461,gap(20), CO ABVD02315843.1:1..2515,gap(20),ABVD02315844.1:1..43907,gap(20), CO ABVD02315845.1:1..22745,gap(20),ABVD02315846.1:1..13234,gap(22), CO ABVD02315847.1:1..59606,gap(20),ABVD02315848.1:1..492,gap(3507), CO ABVD02315849.1:1..146237,gap(20),ABVD02315850.1:1..502,gap(20), CO ABVD02315851.1:1..7203,gap(177),ABVD02315852.1:1..102429) // ID KN190512; SV 1; linear; genomic DNA; CON; MAM; 9887 BP. XX AC KN190512; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257390, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-9887 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-9887 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 8a5589d56414c09cab103569c5f64a14. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..9887 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 1393..1412 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 5539..5558 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02315853.1:1..1392,gap(20),ABVD02315854.1:1..4126,gap(20), CO ABVD02315855.1:1..4329) // ID KN190513; SV 1; linear; genomic DNA; CON; MAM; 68464 BP. XX AC KN190513; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257391, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-68464 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-68464 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; f727e8b19c0ba55ac8efaedbba79f830. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..68464 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 586..605 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02315856.1:1..585,gap(20),ABVD02315857.1:1..67859) // ID KN190514; SV 1; linear; genomic DNA; CON; MAM; 6844 BP. XX AC KN190514; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257392, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-6844 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-6844 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 4545563c25bc4f1d94cc13e108816319. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..6844 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 393..1070 FT /estimated_length=678 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 5141..6046 FT /estimated_length=906 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02315858.1:1..392,gap(678),ABVD02315859.1:1..4070,gap(906), CO ABVD02315860.1:1..798) // ID KN190515; SV 1; linear; genomic DNA; CON; MAM; 1255471 BP. XX AC KN190515; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257393, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-1255471 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-1255471 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 517f6056882887c52b4877ad0181792d. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..1255471 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 776..993 FT /estimated_length=218 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 27154..27262 FT /estimated_length=109 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 119382..119401 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 152318..153289 FT /estimated_length=972 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 154046..154102 FT /estimated_length=57 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 188523..188585 FT /estimated_length=63 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 225394..225740 FT /estimated_length=347 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 226101..226120 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 275344..280031 FT /estimated_length=4688 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 339979..341543 FT /estimated_length=1565 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 345379..346225 FT /estimated_length=847 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 404901..405007 FT /estimated_length=107 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 560604..560623 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 586650..586669 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 587272..587291 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 587690..587709 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 620958..621926 FT /estimated_length=969 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 622184..625481 FT /estimated_length=3298 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 636654..636673 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 810784..811080 FT /estimated_length=297 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 973059..973078 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 1253131..1254528 FT /estimated_length=1398 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02315861.1:1..775,gap(218),ABVD02315862.1:1..26160,gap(109), CO ABVD02315863.1:1..92119,gap(20),ABVD02315864.1:1..32916,gap(972), CO ABVD02315865.1:1..756,gap(57),ABVD02315866.1:1..34420,gap(63), CO ABVD02315867.1:1..36808,gap(347),ABVD02315868.1:1..360,gap(20), CO ABVD02315869.1:1..49223,gap(4688),ABVD02315870.1:1..59947,gap(1565), CO ABVD02315871.1:1..3835,gap(847),ABVD02315872.1:1..58675,gap(107), CO ABVD02315873.1:1..155596,gap(20),ABVD02315874.1:1..26026,gap(20), CO ABVD02315875.1:1..602,gap(20),ABVD02315876.1:1..398,gap(20), CO ABVD02315877.1:1..33248,gap(969),ABVD02315878.1:1..257,gap(3298), CO ABVD02315879.1:1..11172,gap(20),ABVD02315880.1:1..174110,gap(297), CO ABVD02315881.1:1..161978,gap(20),ABVD02315882.1:1..280052,gap(1398), CO ABVD02315883.1:1..943) // ID KN190516; SV 1; linear; genomic DNA; CON; MAM; 11466 BP. XX AC KN190516; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257394, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-11466 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-11466 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; f7566f48cf46a9b081daf04021f41320. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..11466 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 722..6755 FT /estimated_length=6034 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 10432..10555 FT /estimated_length=124 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02315884.1:1..721,gap(6034),ABVD02315885.1:1..3676,gap(124), CO ABVD02315886.1:1..911) // ID KN190517; SV 1; linear; genomic DNA; CON; MAM; 266682 BP. XX AC KN190517; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257395, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-266682 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-266682 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 81578a0274eaeaab3d8700bbb01c0f71. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..266682 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 892..2308 FT /estimated_length=1417 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 18421..18440 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 44865..44914 FT /estimated_length=50 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 45509..45528 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 46460..47084 FT /estimated_length=625 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 261058..265832 FT /estimated_length=4775 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02315887.1:1..891,gap(1417),ABVD02315888.1:1..16112,gap(20), CO ABVD02315889.1:1..26424,gap(50),ABVD02315890.1:1..594,gap(20), CO ABVD02315891.1:1..931,gap(625),ABVD02315892.1:1..213973,gap(4775), CO ABVD02315893.1:1..850) // ID KN190518; SV 1; linear; genomic DNA; CON; MAM; 27077 BP. XX AC KN190518; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257396, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-27077 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-27077 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 75134e857f10e8df424ce2ad94ea3193. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..27077 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 456..4643 FT /estimated_length=4188 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 14527..14546 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 15721..16253 FT /estimated_length=533 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02315894.1:1..455,gap(4188),ABVD02315895.1:1..9883,gap(20), CO ABVD02315896.1:1..1174,gap(533),ABVD02315897.1:1..10824) // ID KN190519; SV 1; linear; genomic DNA; CON; MAM; 23702 BP. XX AC KN190519; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257397, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-23702 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-23702 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; ca78e0c90a8eeb9ca8ff61339440f247. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..23702 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 334..574 FT /estimated_length=241 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 1116..2527 FT /estimated_length=1412 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 22731..22750 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02315898.1:1..333,gap(241),ABVD02315899.1:1..541,gap(1412), CO ABVD02315900.1:1..20203,gap(20),ABVD02315901.1:1..952) // ID KN190520; SV 1; linear; genomic DNA; CON; MAM; 59889 BP. XX AC KN190520; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257398, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-59889 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-59889 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 123909b0273ab5e885e05983972a2672. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..59889 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 21345..22159 FT /estimated_length=815 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 57627..59090 FT /estimated_length=1464 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02315902.1:1..21344,gap(815),ABVD02315903.1:1..35467,gap(1464), CO ABVD02315904.1:1..799) // ID KN190521; SV 1; linear; genomic DNA; CON; MAM; 867372 BP. XX AC KN190521; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257399, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-867372 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-867372 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 96bcc26ca136496aa218077307611a3d. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..867372 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 1222..1734 FT /estimated_length=513 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 3831..4900 FT /estimated_length=1070 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 5650..5669 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 14850..15353 FT /estimated_length=504 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 26052..26071 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 126094..126257 FT /estimated_length=164 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 204807..204846 FT /estimated_length=40 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 277999..278200 FT /estimated_length=202 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 303596..303953 FT /estimated_length=358 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 311566..311585 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 311862..315137 FT /estimated_length=3276 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 315861..317283 FT /estimated_length=1423 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 318370..318389 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 434947..434966 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 453372..453391 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 610116..611029 FT /estimated_length=914 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 613070..613123 FT /estimated_length=54 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 614120..614139 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 615186..615205 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 616511..616530 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 655273..655292 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 660821..660840 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 711940..711959 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 716642..717427 FT /estimated_length=786 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 779399..779418 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 798544..799151 FT /estimated_length=608 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 834794..838525 FT /estimated_length=3732 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 861161..861685 FT /estimated_length=525 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 863085..864264 FT /estimated_length=1180 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 865344..866032 FT /estimated_length=689 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02315905.1:1..1221,gap(513),ABVD02315906.1:1..2096,gap(1070), CO ABVD02315907.1:1..749,gap(20),ABVD02315908.1:1..9180,gap(504), CO ABVD02315909.1:1..10698,gap(20),ABVD02315910.1:1..100022,gap(164), CO ABVD02315911.1:1..78549,gap(40),ABVD02315912.1:1..73152,gap(202), CO ABVD02315913.1:1..25395,gap(358),ABVD02315914.1:1..7612,gap(20), CO ABVD02315915.1:1..276,gap(3276),ABVD02315916.1:1..723,gap(1423), CO ABVD02315917.1:1..1086,gap(20),ABVD02315918.1:1..116557,gap(20), CO ABVD02315919.1:1..18405,gap(20),ABVD02315920.1:1..156724,gap(914), CO ABVD02315921.1:1..2040,gap(54),ABVD02315922.1:1..996,gap(20), CO ABVD02315923.1:1..1046,gap(20),ABVD02315924.1:1..1305,gap(20), CO ABVD02315925.1:1..38742,gap(20),ABVD02315926.1:1..5528,gap(20), CO ABVD02315927.1:1..51099,gap(20),ABVD02315928.1:1..4682,gap(786), CO ABVD02315929.1:1..61971,gap(20),ABVD02315930.1:1..19125,gap(608), CO ABVD02315931.1:1..35642,gap(3732),ABVD02315932.1:1..22635,gap(525), CO ABVD02315933.1:1..1399,gap(1180),ABVD02315934.1:1..1079,gap(689), CO ABVD02315935.1:1..1340) // ID KN190522; SV 1; linear; genomic DNA; CON; MAM; 499224 BP. XX AC KN190522; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257400, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-499224 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-499224 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; a43841f7e9546570c862d9d29f1128c2. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..499224 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 96175..96194 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 106741..106991 FT /estimated_length=251 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 155330..155434 FT /estimated_length=105 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 167545..168932 FT /estimated_length=1388 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 235110..235673 FT /estimated_length=564 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 284340..284359 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 286028..289653 FT /estimated_length=3626 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 372627..374185 FT /estimated_length=1559 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 374529..375186 FT /estimated_length=658 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 451182..451521 FT /estimated_length=340 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 452195..452214 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 497880..497899 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02315936.1:1..96174,gap(20),ABVD02315937.1:1..10546,gap(251), CO ABVD02315938.1:1..48338,gap(105),ABVD02315939.1:1..12110,gap(1388), CO ABVD02315940.1:1..66177,gap(564),ABVD02315941.1:1..48666,gap(20), CO ABVD02315942.1:1..1668,gap(3626),ABVD02315943.1:1..82973,gap(1559), CO ABVD02315944.1:1..343,gap(658),ABVD02315945.1:1..75995,gap(340), CO ABVD02315946.1:1..673,gap(20),ABVD02315947.1:1..45665,gap(20), CO ABVD02315948.1:1..1325) // ID KN190523; SV 1; linear; genomic DNA; CON; MAM; 352816 BP. XX AC KN190523; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257401, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-352816 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-352816 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 48a9fc4607b16258a916103ac129e90e. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..352816 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 87486..87505 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 87838..87999 FT /estimated_length=162 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 96819..96838 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 116824..117617 FT /estimated_length=794 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 231155..235927 FT /estimated_length=4773 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 351346..352073 FT /estimated_length=728 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02315949.1:1..87485,gap(20),ABVD02315950.1:1..332,gap(162), CO ABVD02315951.1:1..8819,gap(20),ABVD02315952.1:1..19985,gap(794), CO ABVD02315953.1:1..113537,gap(4773),ABVD02315954.1:1..115418,gap(728), CO ABVD02315955.1:1..743) // ID KN190524; SV 1; linear; genomic DNA; CON; MAM; 711531 BP. XX AC KN190524; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257402, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-711531 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-711531 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 2e0604520f129cd1ce5e20b917c97788. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..711531 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 770..789 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 1600..1619 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 2584..2603 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 109944..109963 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 119792..119811 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 170947..170988 FT /estimated_length=42 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 171460..173744 FT /estimated_length=2285 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 193416..193435 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 194079..194576 FT /estimated_length=498 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 295647..295666 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 531329..531959 FT /estimated_length=631 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 709901..709920 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02315956.1:1..769,gap(20),ABVD02315957.1:1..810,gap(20), CO ABVD02315958.1:1..964,gap(20),ABVD02315959.1:1..107340,gap(20), CO ABVD02315960.1:1..9828,gap(20),ABVD02315961.1:1..51135,gap(42), CO ABVD02315962.1:1..471,gap(2285),ABVD02315963.1:1..19671,gap(20), CO ABVD02315964.1:1..643,gap(498),ABVD02315965.1:1..101070,gap(20), CO ABVD02315966.1:1..235662,gap(631),ABVD02315967.1:1..177941,gap(20), CO ABVD02315968.1:1..1611) // ID KN190525; SV 1; linear; genomic DNA; CON; MAM; 214954 BP. XX AC KN190525; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257403, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-214954 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-214954 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 5ecac4224886b0c5a735610454d30060. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..214954 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 100316..100335 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 196128..196312 FT /estimated_length=185 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02315969.1:1..100315,gap(20),ABVD02315970.1:1..95792,gap(185), CO ABVD02315971.1:1..18642) // ID KN190526; SV 1; linear; genomic DNA; CON; MAM; 299588 BP. XX AC KN190526; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257404, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-299588 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-299588 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 3726e71fcddf8514c65692ec2079d693. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..299588 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 789..2793 FT /estimated_length=2005 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 32150..32702 FT /estimated_length=553 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 33962..33981 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 54834..54853 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 170713..170732 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 180074..180093 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 221074..221966 FT /estimated_length=893 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 222432..223354 FT /estimated_length=923 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 244280..244523 FT /estimated_length=244 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 265740..265889 FT /estimated_length=150 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02315972.1:1..788,gap(2005),ABVD02315973.1:1..29356,gap(553), CO ABVD02315974.1:1..1259,gap(20),ABVD02315975.1:1..20852,gap(20), CO ABVD02315976.1:1..115859,gap(20),ABVD02315977.1:1..9341,gap(20), CO ABVD02315978.1:1..40980,gap(893),ABVD02315979.1:1..465,gap(923), CO ABVD02315980.1:1..20925,gap(244),ABVD02315981.1:1..21216,gap(150), CO ABVD02315982.1:1..33699) // ID KN190527; SV 1; linear; genomic DNA; CON; MAM; 18320 BP. XX AC KN190527; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257405, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-18320 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-18320 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; e26c24d25edfd00e9c332478f6476540. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..18320 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 827..1404 FT /estimated_length=578 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 15658..16115 FT /estimated_length=458 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02315983.1:1..826,gap(578),ABVD02315984.1:1..14253,gap(458), CO ABVD02315985.1:1..2205) // ID KN190528; SV 1; linear; genomic DNA; CON; MAM; 948443 BP. XX AC KN190528; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257406, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-948443 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-948443 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 2188ebb849c0eb20706cd51b6b76efac. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..948443 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 82601..82620 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 105697..105716 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 107082..107493 FT /estimated_length=412 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 126840..127155 FT /estimated_length=316 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 209254..209484 FT /estimated_length=231 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 294380..294538 FT /estimated_length=159 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 295218..295237 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 357809..357828 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 388664..388713 FT /estimated_length=50 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 389441..389543 FT /estimated_length=103 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 414534..414785 FT /estimated_length=252 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 796694..796962 FT /estimated_length=269 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 797482..798076 FT /estimated_length=595 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 886360..886597 FT /estimated_length=238 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02315986.1:1..82600,gap(20),ABVD02315987.1:1..23076,gap(20), CO ABVD02315988.1:1..1365,gap(412),ABVD02315989.1:1..19346,gap(316), CO ABVD02315990.1:1..82098,gap(231),ABVD02315991.1:1..84895,gap(159), CO ABVD02315992.1:1..679,gap(20),ABVD02315993.1:1..62571,gap(20), CO ABVD02315994.1:1..30835,gap(50),ABVD02315995.1:1..727,gap(103), CO ABVD02315996.1:1..24990,gap(252),ABVD02315997.1:1..381908,gap(269), CO ABVD02315998.1:1..519,gap(595),ABVD02315999.1:1..88283,gap(238), CO ABVD02316000.1:1..61846) // ID KN190529; SV 1; linear; genomic DNA; CON; MAM; 433803 BP. XX AC KN190529; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257407, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-433803 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-433803 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 0549751956f8212fdcde224eb3a22280. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..433803 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 26546..26565 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 31130..31291 FT /estimated_length=162 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 51698..51763 FT /estimated_length=66 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 100323..100342 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 166611..166630 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 201085..201630 FT /estimated_length=546 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 219040..219059 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 247316..247362 FT /estimated_length=47 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 253311..253352 FT /estimated_length=42 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 259980..260549 FT /estimated_length=570 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 260768..260787 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 261714..261850 FT /estimated_length=137 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 421941..424509 FT /estimated_length=2569 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 429730..429749 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 431826..432088 FT /estimated_length=263 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 432812..432831 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316001.1:1..26545,gap(20),ABVD02316002.1:1..4564,gap(162), CO ABVD02316003.1:1..20406,gap(66),ABVD02316004.1:1..48559,gap(20), CO ABVD02316005.1:1..66268,gap(20),ABVD02316006.1:1..34454,gap(546), CO ABVD02316007.1:1..17409,gap(20),ABVD02316008.1:1..28256,gap(47), CO ABVD02316009.1:1..5948,gap(42),ABVD02316010.1:1..6627,gap(570), CO ABVD02316011.1:1..218,gap(20),ABVD02316012.1:1..926,gap(137), CO ABVD02316013.1:1..160090,gap(2569),ABVD02316014.1:1..5220,gap(20), CO ABVD02316015.1:1..2076,gap(263),ABVD02316016.1:1..723,gap(20), CO ABVD02316017.1:1..972) // ID KN190530; SV 1; linear; genomic DNA; CON; MAM; 12593 BP. XX AC KN190530; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257408, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-12593 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-12593 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 1ab72fad1ca4203804695caba5809ab5. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..12593 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 4699..4718 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316018.1:1..4698,gap(20),ABVD02316019.1:1..7875) // ID KN190531; SV 1; linear; genomic DNA; CON; MAM; 18925 BP. XX AC KN190531; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257409, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-18925 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-18925 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; a16282d90c0a79af690e469c45436c58. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..18925 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 17207..18419 FT /estimated_length=1213 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316020.1:1..17206,gap(1213),ABVD02316021.1:1..506) // ID KN190532; SV 1; linear; genomic DNA; CON; MAM; 8709 BP. XX AC KN190532; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257411, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-8709 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-8709 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 2d8db4c0ac334669941b05e14576e4bc. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..8709 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 4702..5298 FT /estimated_length=597 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 7101..7510 FT /estimated_length=410 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316023.1:1..4701,gap(597),ABVD02316024.1:1..1802,gap(410), CO ABVD02316025.1:1..1199) // ID KN190533; SV 1; linear; genomic DNA; CON; MAM; 19531 BP. XX AC KN190533; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257412, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-19531 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-19531 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 2150bd2f5dcf5c81468cbb41ee6c105b. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..19531 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 11138..11157 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316026.1:1..11137,gap(20),ABVD02316027.1:1..8374) // ID KN190534; SV 1; linear; genomic DNA; CON; MAM; 545617 BP. XX AC KN190534; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257413, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-545617 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-545617 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; b6311f9a78e69c81a31ed51c5e7115e2. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..545617 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 5522..5682 FT /estimated_length=161 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 16591..16781 FT /estimated_length=191 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 17048..17574 FT /estimated_length=527 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 17873..18099 FT /estimated_length=227 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 19129..19380 FT /estimated_length=252 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 41729..41748 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 42238..42257 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 54811..54830 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 64502..64560 FT /estimated_length=59 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 68805..69149 FT /estimated_length=345 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 70519..71442 FT /estimated_length=924 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 98285..98345 FT /estimated_length=61 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 103449..103758 FT /estimated_length=310 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 108089..108108 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 150871..151599 FT /estimated_length=729 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 170825..172249 FT /estimated_length=1425 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 234120..234840 FT /estimated_length=721 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 242093..242112 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 242854..242873 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 253953..253972 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 269744..269763 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 281357..281440 FT /estimated_length=84 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 288143..288162 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 313508..313557 FT /estimated_length=50 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 323004..323023 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 326868..327037 FT /estimated_length=170 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 332550..332700 FT /estimated_length=151 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 343700..343719 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 344363..344382 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 356630..357528 FT /estimated_length=899 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 358506..358984 FT /estimated_length=479 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 359725..359858 FT /estimated_length=134 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 362373..362689 FT /estimated_length=317 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 373956..373975 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 374351..374608 FT /estimated_length=258 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 378256..378275 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 382665..382684 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 383080..383265 FT /estimated_length=186 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 386296..386315 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 417608..417995 FT /estimated_length=388 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 430655..431735 FT /estimated_length=1081 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 432639..433884 FT /estimated_length=1246 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 464754..464892 FT /estimated_length=139 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 466601..466880 FT /estimated_length=280 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 475982..476353 FT /estimated_length=372 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316028.1:1..5521,gap(161),ABVD02316029.1:1..10908,gap(191), CO ABVD02316030.1:1..266,gap(527),ABVD02316031.1:1..298,gap(227), CO ABVD02316032.1:1..1029,gap(252),ABVD02316033.1:1..22348,gap(20), CO ABVD02316034.1:1..489,gap(20),ABVD02316035.1:1..12553,gap(20), CO ABVD02316036.1:1..9671,gap(59),ABVD02316037.1:1..4244,gap(345), CO ABVD02316038.1:1..1369,gap(924),ABVD02316039.1:1..26842,gap(61), CO ABVD02316040.1:1..5103,gap(310),ABVD02316041.1:1..4330,gap(20), CO ABVD02316042.1:1..42762,gap(729),ABVD02316043.1:1..19225,gap(1425), CO ABVD02316044.1:1..61870,gap(721),ABVD02316045.1:1..7252,gap(20), CO ABVD02316046.1:1..741,gap(20),ABVD02316047.1:1..11079,gap(20), CO ABVD02316048.1:1..15771,gap(20),ABVD02316049.1:1..11593,gap(84), CO ABVD02316050.1:1..6702,gap(20),ABVD02316051.1:1..25345,gap(50), CO ABVD02316052.1:1..9446,gap(20),ABVD02316053.1:1..3844,gap(170), CO ABVD02316054.1:1..5512,gap(151),ABVD02316055.1:1..10999,gap(20), CO ABVD02316056.1:1..643,gap(20),ABVD02316057.1:1..12247,gap(899), CO ABVD02316058.1:1..977,gap(479),ABVD02316059.1:1..740,gap(134), CO ABVD02316060.1:1..2514,gap(317),ABVD02316061.1:1..11266,gap(20), CO ABVD02316062.1:1..375,gap(258),ABVD02316063.1:1..3647,gap(20), CO ABVD02316064.1:1..4389,gap(20),ABVD02316065.1:1..395,gap(186), CO ABVD02316066.1:1..3030,gap(20),ABVD02316067.1:1..31292,gap(388), CO ABVD02316068.1:1..12659,gap(1081),ABVD02316069.1:1..903,gap(1246), CO ABVD02316070.1:1..30869,gap(139),ABVD02316071.1:1..1708,gap(280), CO ABVD02316072.1:1..9101,gap(372),ABVD02316073.1:1..69264) // ID KN190535; SV 1; linear; genomic DNA; CON; MAM; 70738 BP. XX AC KN190535; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257415, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-70738 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-70738 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 329074f202b275e7eafc7832ee943d14. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..70738 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 815..2303 FT /estimated_length=1489 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 2865..2884 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 18929..19402 FT /estimated_length=474 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 19876..19895 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 20299..20447 FT /estimated_length=149 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 52614..52633 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316075.1:1..814,gap(1489),ABVD02316076.1:1..561,gap(20), CO ABVD02316077.1:1..16044,gap(474),ABVD02316078.1:1..473,gap(20), CO ABVD02316079.1:1..403,gap(149),ABVD02316080.1:1..32166,gap(20), CO ABVD02316081.1:1..18105) // ID KN190536; SV 1; linear; genomic DNA; CON; MAM; 53102 BP. XX AC KN190536; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257416, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-53102 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-53102 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; afd22db553a7c95cbfe2574092b6132b. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..53102 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 4499..4873 FT /estimated_length=375 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 51627..52021 FT /estimated_length=395 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 52270..52599 FT /estimated_length=330 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316082.1:1..4498,gap(375),ABVD02316083.1:1..46753,gap(395), CO ABVD02316084.1:1..248,gap(330),ABVD02316085.1:1..503) // ID KN190537; SV 1; linear; genomic DNA; CON; MAM; 34712 BP. XX AC KN190537; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257417, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-34712 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-34712 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; ef44e6fd688e5659ce661bc28aff8611. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..34712 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 469..1604 FT /estimated_length=1136 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 3537..3556 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 5020..6290 FT /estimated_length=1271 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 9043..9062 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 10593..10775 FT /estimated_length=183 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 33149..33674 FT /estimated_length=526 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316086.1:1..468,gap(1136),ABVD02316087.1:1..1932,gap(20), CO ABVD02316088.1:1..1463,gap(1271),ABVD02316089.1:1..2752,gap(20), CO ABVD02316090.1:1..1530,gap(183),ABVD02316091.1:1..22373,gap(526), CO ABVD02316092.1:1..1038) // ID KN190538; SV 1; linear; genomic DNA; CON; MAM; 91258 BP. XX AC KN190538; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257418, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-91258 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-91258 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 7cd9427787f0b368e3bcab747abb49dd. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..91258 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 425..1907 FT /estimated_length=1483 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 74530..74554 FT /estimated_length=25 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 86533..90423 FT /estimated_length=3891 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316093.1:1..424,gap(1483),ABVD02316094.1:1..72622,gap(25), CO ABVD02316095.1:1..11978,gap(3891),ABVD02316096.1:1..835) // ID KN190539; SV 1; linear; genomic DNA; CON; MAM; 122805 BP. XX AC KN190539; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257419, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-122805 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-122805 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 542da666d786fb1bfc83fe05048684f0. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..122805 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 67184..67268 FT /estimated_length=85 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 77077..77142 FT /estimated_length=66 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 77518..78927 FT /estimated_length=1410 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 79731..79750 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 80517..80824 FT /estimated_length=308 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 81124..81242 FT /estimated_length=119 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 118254..118460 FT /estimated_length=207 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316097.1:1..67183,gap(85),ABVD02316098.1:1..9808,gap(66), CO ABVD02316099.1:1..375,gap(1410),ABVD02316100.1:1..803,gap(20), CO ABVD02316101.1:1..766,gap(308),ABVD02316102.1:1..299,gap(119), CO ABVD02316103.1:1..37011,gap(207),ABVD02316104.1:1..4345) // ID KN190540; SV 1; linear; genomic DNA; CON; MAM; 1074238 BP. XX AC KN190540; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257420, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-1074238 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-1074238 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 91087ea8b7da1773e8a23c03a9dd646e. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..1074238 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 50816..52020 FT /estimated_length=1205 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 53402..54111 FT /estimated_length=710 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 317631..317698 FT /estimated_length=68 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 419677..420146 FT /estimated_length=470 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 437875..437894 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 516071..516090 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 549582..552819 FT /estimated_length=3238 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 553684..554304 FT /estimated_length=621 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 554573..554861 FT /estimated_length=289 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 566465..567152 FT /estimated_length=688 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 567929..567948 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 614228..614247 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 633485..633835 FT /estimated_length=351 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 755823..756314 FT /estimated_length=492 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 757526..758232 FT /estimated_length=707 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 758879..759664 FT /estimated_length=786 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 761003..761451 FT /estimated_length=449 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 762680..763431 FT /estimated_length=752 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 777854..777873 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 1017190..1017773 FT /estimated_length=584 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 1037527..1038325 FT /estimated_length=799 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 1038614..1038633 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 1040693..1041102 FT /estimated_length=410 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316105.1:1..50815,gap(1205),ABVD02316106.1:1..1381,gap(710), CO ABVD02316107.1:1..263519,gap(68),ABVD02316108.1:1..101978,gap(470), CO ABVD02316109.1:1..17728,gap(20),ABVD02316110.1:1..78176,gap(20), CO ABVD02316111.1:1..33491,gap(3238),ABVD02316112.1:1..864,gap(621), CO ABVD02316113.1:1..268,gap(289),ABVD02316114.1:1..11603,gap(688), CO ABVD02316115.1:1..776,gap(20),ABVD02316116.1:1..46279,gap(20), CO ABVD02316117.1:1..19237,gap(351),ABVD02316118.1:1..121987,gap(492), CO ABVD02316119.1:1..1211,gap(707),ABVD02316120.1:1..646,gap(786), CO ABVD02316121.1:1..1338,gap(449),ABVD02316122.1:1..1228,gap(752), CO ABVD02316123.1:1..14422,gap(20),ABVD02316124.1:1..239316,gap(584), CO ABVD02316125.1:1..19753,gap(799),ABVD02316126.1:1..288,gap(20), CO ABVD02316127.1:1..2059,gap(410),ABVD02316128.1:1..33136) // ID KN190541; SV 1; linear; genomic DNA; CON; MAM; 8259 BP. XX AC KN190541; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257421, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-8259 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-8259 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; faee987780d06cb61b7f86ed81f410c2. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..8259 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 2467..3046 FT /estimated_length=580 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 4496..5228 FT /estimated_length=733 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 6052..7182 FT /estimated_length=1131 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316129.1:1..2466,gap(580),ABVD02316130.1:1..1449,gap(733), CO ABVD02316131.1:1..823,gap(1131),ABVD02316132.1:1..1077) // ID KN190542; SV 1; linear; genomic DNA; CON; MAM; 14898 BP. XX AC KN190542; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257422, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-14898 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-14898 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; ce7ab0f0687634d24f4e8b98c84e6724. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..14898 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 5101..5553 FT /estimated_length=453 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 13502..13521 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316133.1:1..5100,gap(453),ABVD02316134.1:1..7948,gap(20), CO ABVD02316135.1:1..1377) // ID KN190543; SV 1; linear; genomic DNA; CON; MAM; 486992 BP. XX AC KN190543; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257423, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-486992 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-486992 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; bbba6c8ce33745fceba01f395ac9ac03. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..486992 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 33027..33046 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 34065..34190 FT /estimated_length=126 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 36284..36303 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 36947..36966 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 275359..275518 FT /estimated_length=160 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 277374..277440 FT /estimated_length=67 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 461248..462736 FT /estimated_length=1489 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 463055..463074 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 466301..466551 FT /estimated_length=251 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 482477..483972 FT /estimated_length=1496 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316136.1:1..33026,gap(20),ABVD02316137.1:1..1018,gap(126), CO ABVD02316138.1:1..2093,gap(20),ABVD02316139.1:1..643,gap(20), CO ABVD02316140.1:1..238392,gap(160),ABVD02316141.1:1..1855,gap(67), CO ABVD02316142.1:1..183807,gap(1489),ABVD02316143.1:1..318,gap(20), CO ABVD02316144.1:1..3226,gap(251),ABVD02316145.1:1..15925,gap(1496), CO ABVD02316146.1:1..3020) // ID KN190544; SV 1; linear; genomic DNA; CON; MAM; 5666 BP. XX AC KN190544; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257424, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-5666 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-5666 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 3288e064d895fd9b04189a585683e9c7. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..5666 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 1424..1443 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 3972..4891 FT /estimated_length=920 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316147.1:1..1423,gap(20),ABVD02316148.1:1..2528,gap(920), CO ABVD02316149.1:1..775) // ID KN190545; SV 1; linear; genomic DNA; CON; MAM; 27577 BP. XX AC KN190545; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257425, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-27577 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-27577 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; ab6997493df4b33744b1fbb1dcc3a42e. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..27577 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 934..2512 FT /estimated_length=1579 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 3304..4165 FT /estimated_length=862 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 4371..4421 FT /estimated_length=51 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 12269..12522 FT /estimated_length=254 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316150.1:1..933,gap(1579),ABVD02316151.1:1..791,gap(862), CO ABVD02316152.1:1..205,gap(51),ABVD02316153.1:1..7847,gap(254), CO ABVD02316154.1:1..15055) // ID KN190546; SV 1; linear; genomic DNA; CON; MAM; 17236 BP. XX AC KN190546; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257426, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-17236 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-17236 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 35aea4720e0829760dc884f093afd662. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..17236 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 467..486 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 1035..1646 FT /estimated_length=612 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 2140..2165 FT /estimated_length=26 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316155.1:1..466,gap(20),ABVD02316156.1:1..548,gap(612), CO ABVD02316157.1:1..493,gap(26),ABVD02316158.1:1..15071) // ID KN190547; SV 1; linear; genomic DNA; CON; MAM; 224144 BP. XX AC KN190547; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257427, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-224144 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-224144 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; a0d968e66ab7604eddf4d523bba8abc9. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..224144 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 2979..4288 FT /estimated_length=1310 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 21225..21914 FT /estimated_length=690 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 25512..26122 FT /estimated_length=611 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 36587..37926 FT /estimated_length=1340 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 78542..78562 FT /estimated_length=21 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 126040..126059 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 136887..136906 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 137330..139093 FT /estimated_length=1764 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 148099..148369 FT /estimated_length=271 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 148853..149144 FT /estimated_length=292 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 149680..151035 FT /estimated_length=1356 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 190461..192424 FT /estimated_length=1964 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 201846..201865 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 202287..203106 FT /estimated_length=820 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 204469..204488 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 222035..223336 FT /estimated_length=1302 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316159.1:1..2978,gap(1310),ABVD02316160.1:1..16936,gap(690), CO ABVD02316161.1:1..3597,gap(611),ABVD02316162.1:1..10464,gap(1340), CO ABVD02316163.1:1..40615,gap(21),ABVD02316164.1:1..47477,gap(20), CO ABVD02316165.1:1..10827,gap(20),ABVD02316166.1:1..423,gap(1764), CO ABVD02316167.1:1..9005,gap(271),ABVD02316168.1:1..483,gap(292), CO ABVD02316169.1:1..535,gap(1356),ABVD02316170.1:1..39425,gap(1964), CO ABVD02316171.1:1..9421,gap(20),ABVD02316172.1:1..421,gap(820), CO ABVD02316173.1:1..1362,gap(20),ABVD02316174.1:1..17546,gap(1302), CO ABVD02316175.1:1..808) // ID KN190548; SV 1; linear; genomic DNA; CON; MAM; 603972 BP. XX AC KN190548; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257428, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-603972 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-603972 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 177568c888160f74ed88a649779901f4. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..603972 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 28897..28916 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 37064..37986 FT /estimated_length=923 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 38296..38315 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 59212..59231 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 62093..62178 FT /estimated_length=86 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 71758..71777 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 72120..72139 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 86807..89286 FT /estimated_length=2480 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 90187..90206 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 139194..139213 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 158615..159034 FT /estimated_length=420 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 172805..172824 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 264117..265182 FT /estimated_length=1066 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 267287..267969 FT /estimated_length=683 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 369554..370280 FT /estimated_length=727 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 372127..372514 FT /estimated_length=388 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 572265..572643 FT /estimated_length=379 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 576695..576714 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 577522..577829 FT /estimated_length=308 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 583619..583638 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316176.1:1..28896,gap(20),ABVD02316177.1:1..8147,gap(923), CO ABVD02316178.1:1..309,gap(20),ABVD02316179.1:1..20896,gap(20), CO ABVD02316180.1:1..2861,gap(86),ABVD02316181.1:1..9579,gap(20), CO ABVD02316182.1:1..342,gap(20),ABVD02316183.1:1..14667,gap(2480), CO ABVD02316184.1:1..900,gap(20),ABVD02316185.1:1..48987,gap(20), CO ABVD02316186.1:1..19401,gap(420),ABVD02316187.1:1..13770,gap(20), CO ABVD02316188.1:1..91292,gap(1066),ABVD02316189.1:1..2104,gap(683), CO ABVD02316190.1:1..101584,gap(727),ABVD02316191.1:1..1846,gap(388), CO ABVD02316192.1:1..199750,gap(379),ABVD02316193.1:1..4051,gap(20), CO ABVD02316194.1:1..807,gap(308),ABVD02316195.1:1..5789,gap(20), CO ABVD02316196.1:1..20334) // ID KN190549; SV 1; linear; genomic DNA; CON; MAM; 9869 BP. XX AC KN190549; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257429, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-9869 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-9869 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; e404606b717c2b962879ce865139ff7b. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..9869 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 386..1383 FT /estimated_length=998 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316197.1:1..385,gap(998),ABVD02316198.1:1..8486) // ID KN190550; SV 1; linear; genomic DNA; CON; MAM; 12840 BP. XX AC KN190550; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257430, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-12840 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-12840 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; a16331a4c62b0c272163eb43781f6ac5. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..12840 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 11113..11882 FT /estimated_length=770 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316199.1:1..11112,gap(770),ABVD02316200.1:1..958) // ID KN190551; SV 1; linear; genomic DNA; CON; MAM; 158873 BP. XX AC KN190551; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257431, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-158873 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-158873 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 576e4573d2cc22ce7694fa3dc4454240. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..158873 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 7999..10245 FT /estimated_length=2247 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 25538..25716 FT /estimated_length=179 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 30920..31164 FT /estimated_length=245 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 32948..32967 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 34981..35000 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 91593..91910 FT /estimated_length=318 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 105202..105285 FT /estimated_length=84 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 114637..114656 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 148992..149102 FT /estimated_length=111 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 153154..153276 FT /estimated_length=123 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316201.1:1..7998,gap(2247),ABVD02316202.1:1..15292,gap(179), CO ABVD02316203.1:1..5203,gap(245),ABVD02316204.1:1..1783,gap(20), CO ABVD02316205.1:1..2013,gap(20),ABVD02316206.1:1..56592,gap(318), CO ABVD02316207.1:1..13291,gap(84),ABVD02316208.1:1..9351,gap(20), CO ABVD02316209.1:1..34335,gap(111),ABVD02316210.1:1..4051,gap(123), CO ABVD02316211.1:1..5597) // ID KN190552; SV 1; linear; genomic DNA; CON; MAM; 135220 BP. XX AC KN190552; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257432, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-135220 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-135220 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 6db0ea399951e9bbcb5223c277047aae. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..135220 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 800..2008 FT /estimated_length=1209 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 3200..5047 FT /estimated_length=1848 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 5999..6018 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 83155..83174 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316212.1:1..799,gap(1209),ABVD02316213.1:1..1191,gap(1848), CO ABVD02316214.1:1..951,gap(20),ABVD02316215.1:1..77136,gap(20), CO ABVD02316216.1:1..52046) // ID KN190553; SV 1; linear; genomic DNA; CON; MAM; 7174 BP. XX AC KN190553; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257434, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-7174 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-7174 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; e3576e1ef30b081304589f779f077ee9. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..7174 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 1899..2386 FT /estimated_length=488 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 5440..6037 FT /estimated_length=598 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316218.1:1..1898,gap(488),ABVD02316219.1:1..3053,gap(598), CO ABVD02316220.1:1..1137) // ID KN190554; SV 1; linear; genomic DNA; CON; MAM; 219019 BP. XX AC KN190554; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257435, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-219019 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-219019 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 14ae11a71746131daabf284e4bdf5f82. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..219019 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 52419..52638 FT /estimated_length=220 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 101730..102271 FT /estimated_length=542 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 103304..103499 FT /estimated_length=196 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 114072..114091 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 135511..139403 FT /estimated_length=3893 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 143365..143671 FT /estimated_length=307 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 163392..163757 FT /estimated_length=366 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 164520..164701 FT /estimated_length=182 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 165576..167082 FT /estimated_length=1507 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 189558..189577 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 190647..190666 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316221.1:1..52418,gap(220),ABVD02316222.1:1..49091,gap(542), CO ABVD02316223.1:1..1032,gap(196),ABVD02316224.1:1..10572,gap(20), CO ABVD02316225.1:1..21419,gap(3893),ABVD02316226.1:1..3961,gap(307), CO ABVD02316227.1:1..19720,gap(366),ABVD02316228.1:1..762,gap(182), CO ABVD02316229.1:1..874,gap(1507),ABVD02316230.1:1..22475,gap(20), CO ABVD02316231.1:1..1069,gap(20),ABVD02316232.1:1..28353) // ID KN190555; SV 1; linear; genomic DNA; CON; MAM; 1049230 BP. XX AC KN190555; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257436, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-1049230 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-1049230 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 5ad6929f872962a4985acba27373c986. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..1049230 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 144805..145175 FT /estimated_length=371 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 176902..177813 FT /estimated_length=912 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 178022..179102 FT /estimated_length=1081 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 180609..180778 FT /estimated_length=170 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 222116..225526 FT /estimated_length=3411 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 248154..248419 FT /estimated_length=266 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 362633..363037 FT /estimated_length=405 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 445782..445801 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 446166..446185 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 449937..449988 FT /estimated_length=52 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 494091..494125 FT /estimated_length=35 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 531450..531753 FT /estimated_length=304 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 534252..534411 FT /estimated_length=160 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 545438..547470 FT /estimated_length=2033 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 604133..604459 FT /estimated_length=327 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 693544..693563 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 823599..824223 FT /estimated_length=625 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 908282..908347 FT /estimated_length=66 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 955222..955440 FT /estimated_length=219 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 957343..957832 FT /estimated_length=490 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 958827..959887 FT /estimated_length=1061 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 1044905..1045266 FT /estimated_length=362 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316233.1:1..144804,gap(371),ABVD02316234.1:1..31726,gap(912), CO ABVD02316235.1:1..208,gap(1081),ABVD02316236.1:1..1506,gap(170), CO ABVD02316237.1:1..41337,gap(3411),ABVD02316238.1:1..22627,gap(266), CO ABVD02316239.1:1..114213,gap(405),ABVD02316240.1:1..82744,gap(20), CO ABVD02316241.1:1..364,gap(20),ABVD02316242.1:1..3751,gap(52), CO ABVD02316243.1:1..44102,gap(35),ABVD02316244.1:1..37324,gap(304), CO ABVD02316245.1:1..2498,gap(160),ABVD02316246.1:1..11026,gap(2033), CO ABVD02316247.1:1..56662,gap(327),ABVD02316248.1:1..89084,gap(20), CO ABVD02316249.1:1..130035,gap(625),ABVD02316250.1:1..84058,gap(66), CO ABVD02316251.1:1..46874,gap(219),ABVD02316252.1:1..1902,gap(490), CO ABVD02316253.1:1..994,gap(1061),ABVD02316254.1:1..85017,gap(362), CO ABVD02316255.1:1..3964) // ID KN190556; SV 1; linear; genomic DNA; CON; MAM; 1241894 BP. XX AC KN190556; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257437, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-1241894 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-1241894 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 4051a6ea43d57ee7c4fed47381da0429. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..1241894 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 59578..59685 FT /estimated_length=108 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 62004..63372 FT /estimated_length=1369 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 63798..64937 FT /estimated_length=1140 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 65670..66241 FT /estimated_length=572 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 74418..74437 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 185455..185474 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 185814..185833 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 358771..358790 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 395066..395518 FT /estimated_length=453 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 411622..411641 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 672800..673096 FT /estimated_length=297 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 674890..675160 FT /estimated_length=271 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 718693..722480 FT /estimated_length=3788 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 723769..723788 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 857729..857893 FT /estimated_length=165 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 858715..858834 FT /estimated_length=120 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 991746..992201 FT /estimated_length=456 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 1116058..1116077 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316256.1:1..59577,gap(108),ABVD02316257.1:1..2318,gap(1369), CO ABVD02316258.1:1..425,gap(1140),ABVD02316259.1:1..732,gap(572), CO ABVD02316260.1:1..8176,gap(20),ABVD02316261.1:1..111017,gap(20), CO ABVD02316262.1:1..339,gap(20),ABVD02316263.1:1..172937,gap(20), CO ABVD02316264.1:1..36275,gap(453),ABVD02316265.1:1..16103,gap(20), CO ABVD02316266.1:1..261158,gap(297),ABVD02316267.1:1..1793,gap(271), CO ABVD02316268.1:1..43532,gap(3788),ABVD02316269.1:1..1288,gap(20), CO ABVD02316270.1:1..133940,gap(165),ABVD02316271.1:1..821,gap(120), CO ABVD02316272.1:1..132911,gap(456),ABVD02316273.1:1..123856,gap(20), CO ABVD02316274.1:1..125817) // ID KN190557; SV 1; linear; genomic DNA; CON; MAM; 67167 BP. XX AC KN190557; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257438, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-67167 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-67167 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 335174ceb4314e3720d88e561e845990. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..67167 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 29019..29117 FT /estimated_length=99 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 30600..31517 FT /estimated_length=918 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 32433..32826 FT /estimated_length=394 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316275.1:1..29018,gap(99),ABVD02316276.1:1..1482,gap(918), CO ABVD02316277.1:1..915,gap(394),ABVD02316278.1:1..34341) // ID KN190558; SV 1; linear; genomic DNA; CON; MAM; 957672 BP. XX AC KN190558; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257439, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-957672 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-957672 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 410e30bcee4906b0af60df5e6c7f59b9. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..957672 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 2470..2651 FT /estimated_length=182 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 48780..48904 FT /estimated_length=125 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 63523..63741 FT /estimated_length=219 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 88627..90477 FT /estimated_length=1851 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 97438..97524 FT /estimated_length=87 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 97785..97821 FT /estimated_length=37 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 108668..108733 FT /estimated_length=66 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 113956..113975 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 162775..163111 FT /estimated_length=337 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 373406..373425 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 374825..374863 FT /estimated_length=39 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 418334..418353 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 419764..423373 FT /estimated_length=3610 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 496231..496250 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 496749..497118 FT /estimated_length=370 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 497537..497556 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 499020..499039 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 499908..499927 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 525600..525619 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 526501..527865 FT /estimated_length=1365 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 528296..529466 FT /estimated_length=1171 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 532328..532347 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 641001..641020 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 794560..794783 FT /estimated_length=224 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 934061..934080 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 955520..956868 FT /estimated_length=1349 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316279.1:1..2469,gap(182),ABVD02316280.1:1..46128,gap(125), CO ABVD02316281.1:1..14618,gap(219),ABVD02316282.1:1..24885,gap(1851), CO ABVD02316283.1:1..6960,gap(87),ABVD02316284.1:1..260,gap(37), CO ABVD02316285.1:1..10846,gap(66),ABVD02316286.1:1..5222,gap(20), CO ABVD02316287.1:1..48799,gap(337),ABVD02316288.1:1..210294,gap(20), CO ABVD02316289.1:1..1399,gap(39),ABVD02316290.1:1..43470,gap(20), CO ABVD02316291.1:1..1410,gap(3610),ABVD02316292.1:1..72857,gap(20), CO ABVD02316293.1:1..498,gap(370),ABVD02316294.1:1..418,gap(20), CO ABVD02316295.1:1..1463,gap(20),ABVD02316296.1:1..868,gap(20), CO ABVD02316297.1:1..25672,gap(20),ABVD02316298.1:1..881,gap(1365), CO ABVD02316299.1:1..430,gap(1171),ABVD02316300.1:1..2861,gap(20), CO ABVD02316301.1:1..108653,gap(20),ABVD02316302.1:1..153539,gap(224), CO ABVD02316303.1:1..139277,gap(20),ABVD02316304.1:1..21439,gap(1349), CO ABVD02316305.1:1..804) // ID KN190559; SV 1; linear; genomic DNA; CON; MAM; 379644 BP. XX AC KN190559; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257440, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-379644 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-379644 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; bf625203caa3d604a39a9c253127ac08. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..379644 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 44667..44879 FT /estimated_length=213 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 72532..73260 FT /estimated_length=729 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 82032..82051 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 217585..217915 FT /estimated_length=331 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 218399..218418 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 302936..303395 FT /estimated_length=460 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 305101..305366 FT /estimated_length=266 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 306108..306127 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 307841..308193 FT /estimated_length=353 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 310175..310500 FT /estimated_length=326 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 311362..311889 FT /estimated_length=528 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 373864..373889 FT /estimated_length=26 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 376307..376371 FT /estimated_length=65 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316306.1:1..44666,gap(213),ABVD02316307.1:1..27652,gap(729), CO ABVD02316308.1:1..8771,gap(20),ABVD02316309.1:1..135533,gap(331), CO ABVD02316310.1:1..483,gap(20),ABVD02316311.1:1..84517,gap(460), CO ABVD02316312.1:1..1705,gap(266),ABVD02316313.1:1..741,gap(20), CO ABVD02316314.1:1..1713,gap(353),ABVD02316315.1:1..1981,gap(326), CO ABVD02316316.1:1..861,gap(528),ABVD02316317.1:1..61974,gap(26), CO ABVD02316318.1:1..2417,gap(65),ABVD02316319.1:1..3273) // ID KN190560; SV 1; linear; genomic DNA; CON; MAM; 599644 BP. XX AC KN190560; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257441, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-599644 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-599644 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; c3b14ba3afb6acee0f9a3f1e1c6fcd26. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..599644 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 6622..6641 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 53881..53900 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 83458..83477 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 84956..85466 FT /estimated_length=511 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 114508..114527 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 118524..118543 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 158322..158341 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 193915..193934 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 222872..222937 FT /estimated_length=66 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 259585..259604 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 260889..260908 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 304589..304608 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 366726..370118 FT /estimated_length=3393 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 378770..378789 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 431292..431311 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 597387..597647 FT /estimated_length=261 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 598464..598898 FT /estimated_length=435 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316320.1:1..6621,gap(20),ABVD02316321.1:1..47239,gap(20), CO ABVD02316322.1:1..29557,gap(20),ABVD02316323.1:1..1478,gap(511), CO ABVD02316324.1:1..29041,gap(20),ABVD02316325.1:1..3996,gap(20), CO ABVD02316326.1:1..39778,gap(20),ABVD02316327.1:1..35573,gap(20), CO ABVD02316328.1:1..28937,gap(66),ABVD02316329.1:1..36647,gap(20), CO ABVD02316330.1:1..1284,gap(20),ABVD02316331.1:1..43680,gap(20), CO ABVD02316332.1:1..62117,gap(3393),ABVD02316333.1:1..8651,gap(20), CO ABVD02316334.1:1..52502,gap(20),ABVD02316335.1:1..166075,gap(261), CO ABVD02316336.1:1..816,gap(435),ABVD02316337.1:1..746) // ID KN190561; SV 1; linear; genomic DNA; CON; MAM; 179167 BP. XX AC KN190561; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257442, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-179167 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-179167 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; f12112c963017eaaf462fd844459e1cc. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..179167 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 9473..9492 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 13883..14254 FT /estimated_length=372 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 14827..15656 FT /estimated_length=830 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 18443..18462 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 19326..19345 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 52953..52972 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 87768..87787 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 96780..97198 FT /estimated_length=419 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 99246..100056 FT /estimated_length=811 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 126150..126169 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 127020..127199 FT /estimated_length=180 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316338.1:1..9472,gap(20),ABVD02316339.1:1..4390,gap(372), CO ABVD02316340.1:1..572,gap(830),ABVD02316341.1:1..2786,gap(20), CO ABVD02316342.1:1..863,gap(20),ABVD02316343.1:1..33607,gap(20), CO ABVD02316344.1:1..34795,gap(20),ABVD02316345.1:1..8992,gap(419), CO ABVD02316346.1:1..2047,gap(811),ABVD02316347.1:1..26093,gap(20), CO ABVD02316348.1:1..850,gap(180),ABVD02316349.1:1..51968) // ID KN190562; SV 1; linear; genomic DNA; CON; MAM; 712925 BP. XX AC KN190562; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257443, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-712925 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-712925 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 076e154be3cc6fb4543069fbc173ab59. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..712925 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 22119..22412 FT /estimated_length=294 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 34675..35003 FT /estimated_length=329 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 35985..36004 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 53358..53377 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 54339..54358 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 61078..61210 FT /estimated_length=133 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 62641..63157 FT /estimated_length=517 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 125961..126090 FT /estimated_length=130 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 126439..126919 FT /estimated_length=481 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 128585..128604 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 129393..129845 FT /estimated_length=453 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 131395..131978 FT /estimated_length=584 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 152882..152901 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 160214..160659 FT /estimated_length=446 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 170440..170459 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 172198..172629 FT /estimated_length=432 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 187345..187483 FT /estimated_length=139 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 198195..198214 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 205703..205906 FT /estimated_length=204 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 243712..244062 FT /estimated_length=351 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 251682..251941 FT /estimated_length=260 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 261095..264192 FT /estimated_length=3098 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 271128..271425 FT /estimated_length=298 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 271771..271838 FT /estimated_length=68 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 275183..275278 FT /estimated_length=96 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 290559..290621 FT /estimated_length=63 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 294877..295101 FT /estimated_length=225 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 304942..304961 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 305379..305664 FT /estimated_length=286 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 311643..311662 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 336549..336759 FT /estimated_length=211 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 347684..347824 FT /estimated_length=141 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 358251..358588 FT /estimated_length=338 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 359307..359385 FT /estimated_length=79 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 370155..370348 FT /estimated_length=194 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 422933..423482 FT /estimated_length=550 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 439911..440264 FT /estimated_length=354 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 529868..530350 FT /estimated_length=483 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 547922..548205 FT /estimated_length=284 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 595949..596553 FT /estimated_length=605 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 620565..620663 FT /estimated_length=99 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 686785..687662 FT /estimated_length=878 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 711463..712552 FT /estimated_length=1090 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316350.1:1..22118,gap(294),ABVD02316351.1:1..12262,gap(329), CO ABVD02316352.1:1..981,gap(20),ABVD02316353.1:1..17353,gap(20), CO ABVD02316354.1:1..961,gap(20),ABVD02316355.1:1..6719,gap(133), CO ABVD02316356.1:1..1430,gap(517),ABVD02316357.1:1..62803,gap(130), CO ABVD02316358.1:1..348,gap(481),ABVD02316359.1:1..1665,gap(20), CO ABVD02316360.1:1..788,gap(453),ABVD02316361.1:1..1549,gap(584), CO ABVD02316362.1:1..20903,gap(20),ABVD02316363.1:1..7312,gap(446), CO ABVD02316364.1:1..9780,gap(20),ABVD02316365.1:1..1738,gap(432), CO ABVD02316366.1:1..14715,gap(139),ABVD02316367.1:1..10711,gap(20), CO ABVD02316368.1:1..7488,gap(204),ABVD02316369.1:1..37805,gap(351), CO ABVD02316370.1:1..7619,gap(260),ABVD02316371.1:1..9153,gap(3098), CO ABVD02316372.1:1..6935,gap(298),ABVD02316373.1:1..345,gap(68), CO ABVD02316374.1:1..3344,gap(96),ABVD02316375.1:1..15280,gap(63), CO ABVD02316376.1:1..4255,gap(225),ABVD02316377.1:1..9840,gap(20), CO ABVD02316378.1:1..417,gap(286),ABVD02316379.1:1..5978,gap(20), CO ABVD02316380.1:1..24886,gap(211),ABVD02316381.1:1..10924,gap(141), CO ABVD02316382.1:1..10426,gap(338),ABVD02316383.1:1..718,gap(79), CO ABVD02316384.1:1..10769,gap(194),ABVD02316385.1:1..52584,gap(550), CO ABVD02316386.1:1..16428,gap(354),ABVD02316387.1:1..89603,gap(483), CO ABVD02316388.1:1..17571,gap(284),ABVD02316389.1:1..47743,gap(605), CO ABVD02316390.1:1..24011,gap(99),ABVD02316391.1:1..66121,gap(878), CO ABVD02316392.1:1..23800,gap(1090),ABVD02316393.1:1..373) // ID KN190563; SV 1; linear; genomic DNA; CON; MAM; 17011 BP. XX AC KN190563; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257444, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-17011 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-17011 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; eb8ca277cc4294fbe25f6515292c7fe2. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..17011 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 790..2113 FT /estimated_length=1324 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 3538..5786 FT /estimated_length=2249 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 7312..8022 FT /estimated_length=711 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 15583..16684 FT /estimated_length=1102 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316394.1:1..789,gap(1324),ABVD02316395.1:1..1424,gap(2249), CO ABVD02316396.1:1..1525,gap(711),ABVD02316397.1:1..7560,gap(1102), CO ABVD02316398.1:1..327) // ID KN190564; SV 1; linear; genomic DNA; CON; MAM; 760613 BP. XX AC KN190564; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257445, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-760613 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-760613 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; e11054f730095c43de0821a652b2059e. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..760613 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 7837..7890 FT /estimated_length=54 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 25670..27112 FT /estimated_length=1443 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 27379..27590 FT /estimated_length=212 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 95766..96067 FT /estimated_length=302 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 96303..96386 FT /estimated_length=84 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 113498..113517 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 137567..137920 FT /estimated_length=354 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 234785..234804 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 251835..251854 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 274033..274973 FT /estimated_length=941 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 275496..275515 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 345141..345194 FT /estimated_length=54 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 395413..395462 FT /estimated_length=50 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 396248..396267 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 444167..444186 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 497002..497021 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 497492..498513 FT /estimated_length=1022 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 520681..521003 FT /estimated_length=323 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 644439..644647 FT /estimated_length=209 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 689288..689307 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316399.1:1..7836,gap(54),ABVD02316400.1:1..17779,gap(1443), CO ABVD02316401.1:1..266,gap(212),ABVD02316402.1:1..68175,gap(302), CO ABVD02316403.1:1..235,gap(84),ABVD02316404.1:1..17111,gap(20), CO ABVD02316405.1:1..24049,gap(354),ABVD02316406.1:1..96864,gap(20), CO ABVD02316407.1:1..17030,gap(20),ABVD02316408.1:1..22178,gap(941), CO ABVD02316409.1:1..522,gap(20),ABVD02316410.1:1..69625,gap(54), CO ABVD02316411.1:1..50218,gap(50),ABVD02316412.1:1..785,gap(20), CO ABVD02316413.1:1..47899,gap(20),ABVD02316414.1:1..52815,gap(20), CO ABVD02316415.1:1..470,gap(1022),ABVD02316416.1:1..22167,gap(323), CO ABVD02316417.1:1..123435,gap(209),ABVD02316418.1:1..44640,gap(20), CO ABVD02316419.1:1..71306) // ID KN190565; SV 1; linear; genomic DNA; CON; MAM; 14233 BP. XX AC KN190565; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257448, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-14233 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-14233 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 9df462b2e7beee9b81ebdc116f14ee65. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..14233 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 3085..5955 FT /estimated_length=2871 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316422.1:1..3084,gap(2871),ABVD02316423.1:1..8278) // ID KN190566; SV 1; linear; genomic DNA; CON; MAM; 7685 BP. XX AC KN190566; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257449, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-7685 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-7685 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 1912def98045a126532a26b904d90a78. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..7685 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 777..1757 FT /estimated_length=981 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 2624..5777 FT /estimated_length=3154 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316424.1:1..776,gap(981),ABVD02316425.1:1..866,gap(3154), CO ABVD02316426.1:1..1908) // ID KN190567; SV 1; linear; genomic DNA; CON; MAM; 9154 BP. XX AC KN190567; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257450, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-9154 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-9154 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 91a195d1f42b374d213d504d42fc6fcd. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..9154 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 439..1457 FT /estimated_length=1019 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316427.1:1..438,gap(1019),ABVD02316428.1:1..7697) // ID KN190568; SV 1; linear; genomic DNA; CON; MAM; 8765 BP. XX AC KN190568; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257452, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-8765 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-8765 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; db634d35ddaae76e66be3d7713a38b56. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..8765 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 7713..7732 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316430.1:1..7712,gap(20),ABVD02316431.1:1..1033) // ID KN190569; SV 1; linear; genomic DNA; CON; MAM; 16689 BP. XX AC KN190569; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257454, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-16689 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-16689 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 368ea6fb3162113c98c8d065330e3a83. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..16689 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 4244..4774 FT /estimated_length=531 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 12208..12554 FT /estimated_length=347 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 13994..14681 FT /estimated_length=688 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316433.1:1..4243,gap(531),ABVD02316434.1:1..7433,gap(347), CO ABVD02316435.1:1..1439,gap(688),ABVD02316436.1:1..2008) // ID KN190570; SV 1; linear; genomic DNA; CON; MAM; 47287 BP. XX AC KN190570; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257458, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-47287 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-47287 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 9010e5ba4fcb250cce39ab06f8efef18. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..47287 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 42713..43607 FT /estimated_length=895 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 44058..46986 FT /estimated_length=2929 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316440.1:1..42712,gap(895),ABVD02316441.1:1..450,gap(2929), CO ABVD02316442.1:1..301) // ID KN190571; SV 1; linear; genomic DNA; CON; MAM; 714268 BP. XX AC KN190571; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257459, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-714268 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-714268 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 77ec0161b4c97f0bd27033e8dc243ac8. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..714268 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 6295..7233 FT /estimated_length=939 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 23203..25165 FT /estimated_length=1963 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 28050..28281 FT /estimated_length=232 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 67346..67638 FT /estimated_length=293 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 69395..69915 FT /estimated_length=521 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 350277..350859 FT /estimated_length=583 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 435162..435451 FT /estimated_length=290 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 488926..488945 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 508278..508297 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 560950..562449 FT /estimated_length=1500 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 564413..565381 FT /estimated_length=969 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 567339..567358 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 568118..568137 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316443.1:1..6294,gap(939),ABVD02316444.1:1..15969,gap(1963), CO ABVD02316445.1:1..2884,gap(232),ABVD02316446.1:1..39064,gap(293), CO ABVD02316447.1:1..1756,gap(521),ABVD02316448.1:1..280361,gap(583), CO ABVD02316449.1:1..84302,gap(290),ABVD02316450.1:1..53474,gap(20), CO ABVD02316451.1:1..19332,gap(20),ABVD02316452.1:1..52652,gap(1500), CO ABVD02316453.1:1..1963,gap(969),ABVD02316454.1:1..1957,gap(20), CO ABVD02316455.1:1..759,gap(20),ABVD02316456.1:1..146131) // ID KN190572; SV 1; linear; genomic DNA; CON; MAM; 56408 BP. XX AC KN190572; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257461, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-56408 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-56408 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; f8c58b3c009fe3ab19459b807304b6ea. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..56408 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 982..1550 FT /estimated_length=569 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 7102..7121 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 16978..16997 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 36605..36624 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 54236..54891 FT /estimated_length=656 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316458.1:1..981,gap(569),ABVD02316459.1:1..5551,gap(20), CO ABVD02316460.1:1..9856,gap(20),ABVD02316461.1:1..19607,gap(20), CO ABVD02316462.1:1..17611,gap(656),ABVD02316463.1:1..1517) // ID KN190573; SV 1; linear; genomic DNA; CON; MAM; 6318 BP. XX AC KN190573; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257462, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-6318 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-6318 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 0162ef5048a6acf993a9297c8a445e5c. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..6318 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 5743..5762 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316464.1:1..5742,gap(20),ABVD02316465.1:1..556) // ID KN190574; SV 1; linear; genomic DNA; CON; MAM; 10558 BP. XX AC KN190574; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257463, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-10558 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-10558 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; e05a292bd28846c032c27a404e16ee36. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..10558 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 488..720 FT /estimated_length=233 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316466.1:1..487,gap(233),ABVD02316467.1:1..9838) // ID KN190575; SV 1; linear; genomic DNA; CON; MAM; 5764 BP. XX AC KN190575; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257466, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-5764 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-5764 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 887837c0f7727302f14d155908d2c024. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..5764 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 3962..4318 FT /estimated_length=357 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316470.1:1..3961,gap(357),ABVD02316471.1:1..1446) // ID KN190576; SV 1; linear; genomic DNA; CON; MAM; 17737 BP. XX AC KN190576; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257467, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-17737 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-17737 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 8884c1bd7ea403d5bd2c612ce6b96dcb. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..17737 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 7491..7865 FT /estimated_length=375 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 11256..15550 FT /estimated_length=4295 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316472.1:1..7490,gap(375),ABVD02316473.1:1..3390,gap(4295), CO ABVD02316474.1:1..2187) // ID KN190577; SV 1; linear; genomic DNA; CON; MAM; 18344 BP. XX AC KN190577; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257468, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-18344 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-18344 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; d4b86b06cdfac3c58eb30ae7b30b1678. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..18344 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 747..2302 FT /estimated_length=1556 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316475.1:1..746,gap(1556),ABVD02316476.1:1..16042) // ID KN190578; SV 1; linear; genomic DNA; CON; MAM; 2845 BP. XX AC KN190578; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257469, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-2845 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-2845 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 41be7e43281929b052ac69d7ac5a8431. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..2845 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 899..1949 FT /estimated_length=1051 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316477.1:1..898,gap(1051),ABVD02316478.1:1..896) // ID KN190579; SV 1; linear; genomic DNA; CON; MAM; 37634 BP. XX AC KN190579; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257470, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-37634 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-37634 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; bb5ebb0827558f9c42d2d79b99a50778. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..37634 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 9798..14122 FT /estimated_length=4325 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316479.1:1..9797,gap(4325),ABVD02316480.1:1..23512) // ID KN190580; SV 1; linear; genomic DNA; CON; MAM; 12790 BP. XX AC KN190580; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257471, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-12790 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-12790 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; e271662d0aaf09ac0afe2db2e6afbda6. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..12790 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 1481..2508 FT /estimated_length=1028 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 4374..5345 FT /estimated_length=972 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 11666..12481 FT /estimated_length=816 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316481.1:1..1480,gap(1028),ABVD02316482.1:1..1865,gap(972), CO ABVD02316483.1:1..6320,gap(816),ABVD02316484.1:1..309) // ID KN190581; SV 1; linear; genomic DNA; CON; MAM; 29811 BP. XX AC KN190581; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257472, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-29811 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-29811 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; c8858e435274aa5eca4853779572a8a2. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..29811 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 571..1282 FT /estimated_length=712 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316485.1:1..570,gap(712),ABVD02316486.1:1..28529) // ID KN190582; SV 1; linear; genomic DNA; CON; MAM; 140609 BP. XX AC KN190582; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257473, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-140609 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-140609 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 31b43f460675e2dc711bd0fe3aaf73e2. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..140609 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 522..541 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 2787..2806 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 12886..13212 FT /estimated_length=327 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 88248..88314 FT /estimated_length=67 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 89625..90302 FT /estimated_length=678 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 92653..92672 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 93476..93495 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 94176..94232 FT /estimated_length=57 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 138323..138562 FT /estimated_length=240 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316487.1:1..521,gap(20),ABVD02316488.1:1..2245,gap(20), CO ABVD02316489.1:1..10079,gap(327),ABVD02316490.1:1..75035,gap(67), CO ABVD02316491.1:1..1310,gap(678),ABVD02316492.1:1..2350,gap(20), CO ABVD02316493.1:1..803,gap(20),ABVD02316494.1:1..680,gap(57), CO ABVD02316495.1:1..44090,gap(240),ABVD02316496.1:1..2047) // ID KN190583; SV 1; linear; genomic DNA; CON; MAM; 8107 BP. XX AC KN190583; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257474, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-8107 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-8107 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 9fb1a341a73924aa0f61782742b86bbf. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..8107 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 990..6922 FT /estimated_length=5933 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316497.1:1..989,gap(5933),ABVD02316498.1:1..1185) // ID KN190584; SV 1; linear; genomic DNA; CON; MAM; 13754 BP. XX AC KN190584; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257477, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-13754 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-13754 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 915fda635cfb0f9fb8222995bc65bd66. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..13754 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 8786..8805 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316501.1:1..8785,gap(20),ABVD02316502.1:1..4949) // ID KN190585; SV 1; linear; genomic DNA; CON; MAM; 16019 BP. XX AC KN190585; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257478, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-16019 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-16019 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; d7cbd3ab0c55524ff3f81ca816ee63cc. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..16019 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 6230..6981 FT /estimated_length=752 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316503.1:1..6229,gap(752),ABVD02316504.1:1..9038) // ID KN190586; SV 1; linear; genomic DNA; CON; MAM; 130759 BP. XX AC KN190586; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257479, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-130759 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-130759 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 25eb0d81631f8198375ec8746c950aeb. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..130759 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 7116..7135 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 8429..8448 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 90054..90073 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 114137..114156 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316505.1:1..7115,gap(20),ABVD02316506.1:1..1293,gap(20), CO ABVD02316507.1:1..81605,gap(20),ABVD02316508.1:1..24063,gap(20), CO ABVD02316509.1:1..16603) // ID KN190587; SV 1; linear; genomic DNA; CON; MAM; 7825 BP. XX AC KN190587; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257482, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-7825 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-7825 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; b058f06e7fc52b473e0454fd2ef65b4a. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..7825 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 745..1757 FT /estimated_length=1013 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 6938..7235 FT /estimated_length=298 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316512.1:1..744,gap(1013),ABVD02316513.1:1..5180,gap(298), CO ABVD02316514.1:1..590) // ID KN190588; SV 1; linear; genomic DNA; CON; MAM; 12298 BP. XX AC KN190588; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257483, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-12298 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-12298 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 9697ace5280217735b23de874f373592. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..12298 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 325..5358 FT /estimated_length=5034 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316515.1:1..324,gap(5034),ABVD02316516.1:1..6940) // ID KN190589; SV 1; linear; genomic DNA; CON; MAM; 11256 BP. XX AC KN190589; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257484, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-11256 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-11256 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 1cc7427fbbabf159cd971777ef616a4f. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..11256 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 305..886 FT /estimated_length=582 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316517.1:1..304,gap(582),ABVD02316518.1:1..10370) // ID KN190590; SV 1; linear; genomic DNA; CON; MAM; 2832 BP. XX AC KN190590; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257485, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-2832 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-2832 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; df44bed5dadfadebf7cb2e17996019e8. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..2832 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 753..2341 FT /estimated_length=1589 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316519.1:1..752,gap(1589),ABVD02316520.1:1..491) // ID KN190591; SV 1; linear; genomic DNA; CON; MAM; 7653 BP. XX AC KN190591; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257486, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-7653 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-7653 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 1f95fee039b3cdcb017024153317b8e5. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..7653 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 1551..1570 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316521.1:1..1550,gap(20),ABVD02316522.1:1..6083) // ID KN190592; SV 1; linear; genomic DNA; CON; MAM; 5518 BP. XX AC KN190592; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257487, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-5518 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-5518 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 6e6bd9c386092ddac4d07f0041afd783. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..5518 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 3989..5060 FT /estimated_length=1072 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316523.1:1..3988,gap(1072),ABVD02316524.1:1..458) // ID KN190593; SV 1; linear; genomic DNA; CON; MAM; 3925 BP. XX AC KN190593; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257488, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-3925 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-3925 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; bf194f8663086529b939f5ac0376540d. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..3925 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 1062..2308 FT /estimated_length=1247 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316525.1:1..1061,gap(1247),ABVD02316526.1:1..1617) // ID KN190594; SV 1; linear; genomic DNA; CON; MAM; 14773 BP. XX AC KN190594; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257489, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-14773 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-14773 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 01c3a9b2a95683f9e35c90d4e14029dd. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..14773 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 769..2188 FT /estimated_length=1420 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316527.1:1..768,gap(1420),ABVD02316528.1:1..12585) // ID KN190595; SV 1; linear; genomic DNA; CON; MAM; 7479 BP. XX AC KN190595; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257490, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-7479 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-7479 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 5662019631e75cae92bedd61cb2c697e. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..7479 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 734..6944 FT /estimated_length=6211 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316529.1:1..733,gap(6211),ABVD02316530.1:1..535) // ID KN190596; SV 1; linear; genomic DNA; CON; MAM; 32826 BP. XX AC KN190596; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257491, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-32826 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-32826 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; becfb9bc3c96a9709339264074c91bf0. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..32826 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 29105..29124 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316531.1:1..29104,gap(20),ABVD02316532.1:1..3702) // ID KN190597; SV 1; linear; genomic DNA; CON; MAM; 115579 BP. XX AC KN190597; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257493, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-115579 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-115579 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; ec72af1efd530949b053a8f1dbceae03. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..115579 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 4562..5257 FT /estimated_length=696 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 17889..17908 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 18672..18894 FT /estimated_length=223 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 35935..35954 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 82669..83020 FT /estimated_length=352 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 92412..92431 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 113779..114796 FT /estimated_length=1018 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316534.1:1..4561,gap(696),ABVD02316535.1:1..12631,gap(20), CO ABVD02316536.1:1..763,gap(223),ABVD02316537.1:1..17040,gap(20), CO ABVD02316538.1:1..46714,gap(352),ABVD02316539.1:1..9391,gap(20), CO ABVD02316540.1:1..21347,gap(1018),ABVD02316541.1:1..783) // ID KN190598; SV 1; linear; genomic DNA; CON; MAM; 9280 BP. XX AC KN190598; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257494, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-9280 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-9280 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 22048d36da089f5910965356397f726e. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..9280 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 7055..9039 FT /estimated_length=1985 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316542.1:1..7054,gap(1985),ABVD02316543.1:1..241) // ID KN190599; SV 1; linear; genomic DNA; CON; MAM; 102059 BP. XX AC KN190599; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257495, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-102059 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-102059 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 49c1c0e979b57942a316e8d3f8df05e7. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..102059 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 21597..21616 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 44830..45067 FT /estimated_length=238 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 45356..45474 FT /estimated_length=119 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 64374..64490 FT /estimated_length=117 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 99551..101304 FT /estimated_length=1754 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316544.1:1..21596,gap(20),ABVD02316545.1:1..23213,gap(238), CO ABVD02316546.1:1..288,gap(119),ABVD02316547.1:1..18899,gap(117), CO ABVD02316548.1:1..35060,gap(1754),ABVD02316549.1:1..755) // ID KN190600; SV 1; linear; genomic DNA; CON; MAM; 59221 BP. XX AC KN190600; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257496, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-59221 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-59221 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 5ded403ce49da80455abf85d1b67f3a3. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..59221 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 1201..6903 FT /estimated_length=5703 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 7723..7762 FT /estimated_length=40 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 56615..56752 FT /estimated_length=138 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 57467..57801 FT /estimated_length=335 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316550.1:1..1200,gap(5703),ABVD02316551.1:1..819,gap(40), CO ABVD02316552.1:1..48852,gap(138),ABVD02316553.1:1..714,gap(335), CO ABVD02316554.1:1..1420) // ID KN190601; SV 1; linear; genomic DNA; CON; MAM; 969917 BP. XX AC KN190601; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257497, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-969917 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-969917 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 0e255aa5226f49e366f0cf7538b6cbd1. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..969917 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 825..844 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 1619..1765 FT /estimated_length=147 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 49597..49616 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 60806..61429 FT /estimated_length=624 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 61789..61993 FT /estimated_length=205 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 91352..93931 FT /estimated_length=2580 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 237609..237709 FT /estimated_length=101 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 241197..241391 FT /estimated_length=195 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 264170..264189 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 545587..545874 FT /estimated_length=288 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 546241..546260 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 558442..558461 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 559557..559576 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 560735..563030 FT /estimated_length=2296 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 821736..822786 FT /estimated_length=1051 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 826940..827559 FT /estimated_length=620 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 845773..846814 FT /estimated_length=1042 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 858052..858071 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316555.1:1..824,gap(20),ABVD02316556.1:1..774,gap(147), CO ABVD02316557.1:1..47831,gap(20),ABVD02316558.1:1..11189,gap(624), CO ABVD02316559.1:1..359,gap(205),ABVD02316560.1:1..29358,gap(2580), CO ABVD02316561.1:1..143677,gap(101),ABVD02316562.1:1..3487,gap(195), CO ABVD02316563.1:1..22778,gap(20),ABVD02316564.1:1..281397,gap(288), CO ABVD02316565.1:1..366,gap(20),ABVD02316566.1:1..12181,gap(20), CO ABVD02316567.1:1..1095,gap(20),ABVD02316568.1:1..1158,gap(2296), CO ABVD02316569.1:1..258705,gap(1051),ABVD02316570.1:1..4153,gap(620), CO ABVD02316571.1:1..18213,gap(1042),ABVD02316572.1:1..11237,gap(20), CO ABVD02316573.1:1..111846) // ID KN190602; SV 1; linear; genomic DNA; CON; MAM; 63174 BP. XX AC KN190602; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257498, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-63174 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-63174 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 920445e8fa41c6844d3ee41b07b62ca7. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..63174 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 735..754 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 48683..49039 FT /estimated_length=357 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316574.1:1..734,gap(20),ABVD02316575.1:1..47928,gap(357), CO ABVD02316576.1:1..14135) // ID KN190603; SV 1; linear; genomic DNA; CON; MAM; 95721 BP. XX AC KN190603; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257499, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-95721 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-95721 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 453cb5638e3284bcfc576b0db8274328. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..95721 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 771..1913 FT /estimated_length=1143 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 21642..22443 FT /estimated_length=802 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 46725..47031 FT /estimated_length=307 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 62210..62229 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 63060..63079 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316577.1:1..770,gap(1143),ABVD02316578.1:1..19728,gap(802), CO ABVD02316579.1:1..24281,gap(307),ABVD02316580.1:1..15178,gap(20), CO ABVD02316581.1:1..830,gap(20),ABVD02316582.1:1..32642) // ID KN190604; SV 1; linear; genomic DNA; CON; MAM; 2852 BP. XX AC KN190604; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257500, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-2852 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-2852 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; c8080b6f16001a54e3d21b34a1a39200. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..2852 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 689..2056 FT /estimated_length=1368 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316583.1:1..688,gap(1368),ABVD02316584.1:1..796) // ID KN190605; SV 1; linear; genomic DNA; CON; MAM; 3196 BP. XX AC KN190605; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257501, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-3196 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-3196 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 9f5b68590614951a9a7c1d5223684de5. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..3196 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 2384..2427 FT /estimated_length=44 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316585.1:1..2383,gap(44),ABVD02316586.1:1..769) // ID KN190606; SV 1; linear; genomic DNA; CON; MAM; 37180 BP. XX AC KN190606; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257502, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-37180 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-37180 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 0da3c1f7560450d5c036293180b8e89d. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..37180 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 27070..27278 FT /estimated_length=209 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316587.1:1..27069,gap(209),ABVD02316588.1:1..9902) // ID KN190607; SV 1; linear; genomic DNA; CON; MAM; 29316 BP. XX AC KN190607; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257503, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-29316 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-29316 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 47fcd0ae75519642cdf2ca5286ab5148. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..29316 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 20185..20608 FT /estimated_length=424 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 20835..20916 FT /estimated_length=82 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316589.1:1..20184,gap(424),ABVD02316590.1:1..226,gap(82), CO ABVD02316591.1:1..8400) // ID KN190608; SV 1; linear; genomic DNA; CON; MAM; 13621 BP. XX AC KN190608; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257504, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-13621 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-13621 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 0d7da4bb0e3bef4999f6bc4a7dc61fcf. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..13621 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 12132..12799 FT /estimated_length=668 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316592.1:1..12131,gap(668),ABVD02316593.1:1..822) // ID KN190609; SV 1; linear; genomic DNA; CON; MAM; 2458 BP. XX AC KN190609; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257506, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-2458 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-2458 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; a30376dcbcbe532802c0c743c6afde00. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..2458 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 446..2129 FT /estimated_length=1684 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316595.1:1..445,gap(1684),ABVD02316596.1:1..329) // ID KN190610; SV 1; linear; genomic DNA; CON; MAM; 11244 BP. XX AC KN190610; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257507, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-11244 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-11244 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; dcea1dce75946af2a8b42d1899421d1e. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..11244 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 905..1388 FT /estimated_length=484 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316597.1:1..904,gap(484),ABVD02316598.1:1..9856) // ID KN190611; SV 1; linear; genomic DNA; CON; MAM; 4361 BP. XX AC KN190611; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257508, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-4361 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-4361 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; d0ae5883e5a510cc8ac9414d45cca91b. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..4361 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 1183..1202 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316599.1:1..1182,gap(20),ABVD02316600.1:1..3159) // ID KN190612; SV 1; linear; genomic DNA; CON; MAM; 30763 BP. XX AC KN190612; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257511, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-30763 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-30763 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 4116c14f23844bcb9a8ab60f051ef66d. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..30763 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 733..752 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316603.1:1..732,gap(20),ABVD02316604.1:1..30011) // ID KN190613; SV 1; linear; genomic DNA; CON; MAM; 718389 BP. XX AC KN190613; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257512, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-718389 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-718389 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 09b260c409d042d532391e390fac80dd. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..718389 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 33752..37103 FT /estimated_length=3352 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 39343..39423 FT /estimated_length=81 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 48057..48293 FT /estimated_length=237 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 50399..51704 FT /estimated_length=1306 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 67181..67606 FT /estimated_length=426 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 186234..187931 FT /estimated_length=1698 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 188775..188794 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 189601..189620 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 227361..228591 FT /estimated_length=1231 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 317099..317118 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 328096..328115 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 328519..328997 FT /estimated_length=479 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 345461..349559 FT /estimated_length=4099 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 356692..356778 FT /estimated_length=87 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 357071..358376 FT /estimated_length=1306 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 382325..382344 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 423596..423751 FT /estimated_length=156 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 426783..427039 FT /estimated_length=257 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 427417..427436 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 428209..428228 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 429061..429080 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 430851..431375 FT /estimated_length=525 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 639047..639478 FT /estimated_length=432 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 716537..716556 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316605.1:1..33751,gap(3352),ABVD02316606.1:1..2239,gap(81), CO ABVD02316607.1:1..8633,gap(237),ABVD02316608.1:1..2105,gap(1306), CO ABVD02316609.1:1..15476,gap(426),ABVD02316610.1:1..118627,gap(1698), CO ABVD02316611.1:1..843,gap(20),ABVD02316612.1:1..806,gap(20), CO ABVD02316613.1:1..37740,gap(1231),ABVD02316614.1:1..88507,gap(20), CO ABVD02316615.1:1..10977,gap(20),ABVD02316616.1:1..403,gap(479), CO ABVD02316617.1:1..16463,gap(4099),ABVD02316618.1:1..7132,gap(87), CO ABVD02316619.1:1..292,gap(1306),ABVD02316620.1:1..23948,gap(20), CO ABVD02316621.1:1..41251,gap(156),ABVD02316622.1:1..3031,gap(257), CO ABVD02316623.1:1..377,gap(20),ABVD02316624.1:1..772,gap(20), CO ABVD02316625.1:1..832,gap(20),ABVD02316626.1:1..1770,gap(525), CO ABVD02316627.1:1..207671,gap(432),ABVD02316628.1:1..77058,gap(20), CO ABVD02316629.1:1..1833) // ID KN190614; SV 1; linear; genomic DNA; CON; MAM; 24345 BP. XX AC KN190614; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257513, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-24345 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-24345 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 0855c941506b0656741c9bbf470f0ec3. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..24345 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 8524..8898 FT /estimated_length=375 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 22344..23180 FT /estimated_length=837 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316630.1:1..8523,gap(375),ABVD02316631.1:1..13445,gap(837), CO ABVD02316632.1:1..1165) // ID KN190615; SV 1; linear; genomic DNA; CON; MAM; 5187 BP. XX AC KN190615; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257514, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-5187 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-5187 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; d1fdd3b181485b8034cf928c8847bd95. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..5187 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 4291..4790 FT /estimated_length=500 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316633.1:1..4290,gap(500),ABVD02316634.1:1..397) // ID KN190616; SV 1; linear; genomic DNA; CON; MAM; 27038 BP. XX AC KN190616; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257515, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-27038 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-27038 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; ef250cc754027c995f15cf9ab949cc9e. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..27038 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 14081..14638 FT /estimated_length=558 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 15417..17267 FT /estimated_length=1851 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 21265..25897 FT /estimated_length=4633 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316635.1:1..14080,gap(558),ABVD02316636.1:1..778,gap(1851), CO ABVD02316637.1:1..3997,gap(4633),ABVD02316638.1:1..1141) // ID KN190617; SV 1; linear; genomic DNA; CON; MAM; 37912 BP. XX AC KN190617; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257516, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-37912 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-37912 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 496d03cf5d79de46c37fd6b430e49b5b. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..37912 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 36802..37130 FT /estimated_length=329 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316639.1:1..36801,gap(329),ABVD02316640.1:1..782) // ID KN190618; SV 1; linear; genomic DNA; CON; MAM; 19573 BP. XX AC KN190618; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257517, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-19573 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-19573 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; f0cda9b504528f804816e9f9c648cac9. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..19573 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 8650..12167 FT /estimated_length=3518 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 17854..18803 FT /estimated_length=950 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316641.1:1..8649,gap(3518),ABVD02316642.1:1..5686,gap(950), CO ABVD02316643.1:1..770) // ID KN190619; SV 1; linear; genomic DNA; CON; MAM; 4801 BP. XX AC KN190619; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257518, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-4801 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-4801 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 0707a60cfe898c7f1ca8da6008aa7f05. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..4801 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 4532..4551 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316644.1:1..4531,gap(20),ABVD02316645.1:1..250) // ID KN190620; SV 1; linear; genomic DNA; CON; MAM; 3063 BP. XX AC KN190620; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257519, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-3063 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-3063 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 775477fdf3accd09959b3ec540174f0f. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..3063 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 928..2118 FT /estimated_length=1191 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316646.1:1..927,gap(1191),ABVD02316647.1:1..945) // ID KN190621; SV 1; linear; genomic DNA; CON; MAM; 14253 BP. XX AC KN190621; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257520, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-14253 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-14253 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; b7587df89f2060f5d84ff5795a559850. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..14253 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 12192..13295 FT /estimated_length=1104 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316648.1:1..12191,gap(1104),ABVD02316649.1:1..958) // ID KN190622; SV 1; linear; genomic DNA; CON; MAM; 3264 BP. XX AC KN190622; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257521, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-3264 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-3264 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 913f22d0a9c862a006306a8021b58611. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..3264 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 2807..2826 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316650.1:1..2806,gap(20),ABVD02316651.1:1..438) // ID KN190623; SV 1; linear; genomic DNA; CON; MAM; 261013 BP. XX AC KN190623; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257522, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-261013 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-261013 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 531344973aee2b3b888db3e1d58e060a. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..261013 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 3983..5277 FT /estimated_length=1295 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 5524..5932 FT /estimated_length=409 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 35127..35146 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 122596..122733 FT /estimated_length=138 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 153335..153354 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 213776..214380 FT /estimated_length=605 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 258734..260181 FT /estimated_length=1448 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316652.1:1..3982,gap(1295),ABVD02316653.1:1..246,gap(409), CO ABVD02316654.1:1..29194,gap(20),ABVD02316655.1:1..87449,gap(138), CO ABVD02316656.1:1..30601,gap(20),ABVD02316657.1:1..60421,gap(605), CO ABVD02316658.1:1..44353,gap(1448),ABVD02316659.1:1..832) // ID KN190624; SV 1; linear; genomic DNA; CON; MAM; 20697 BP. XX AC KN190624; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257523, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-20697 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-20697 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 2cafccf8e3b3178f0c54c0025229f961. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..20697 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 1070..5924 FT /estimated_length=4855 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 8121..8420 FT /estimated_length=300 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 19605..19968 FT /estimated_length=364 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316660.1:1..1069,gap(4855),ABVD02316661.1:1..2196,gap(300), CO ABVD02316662.1:1..11184,gap(364),ABVD02316663.1:1..729) // ID KN190625; SV 1; linear; genomic DNA; CON; MAM; 724377 BP. XX AC KN190625; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257524, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-724377 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-724377 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 76b277eb1c728cf68ea0537f139e46e0. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..724377 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 753..772 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 3843..3959 FT /estimated_length=117 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 35886..39468 FT /estimated_length=3583 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 63694..63836 FT /estimated_length=143 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 90352..90371 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 91240..91388 FT /estimated_length=149 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 119021..119040 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 179618..179637 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 232709..232733 FT /estimated_length=25 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 306972..306991 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 321015..321064 FT /estimated_length=50 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 321449..321468 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 489855..490017 FT /estimated_length=163 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 497080..497099 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316664.1:1..752,gap(20),ABVD02316665.1:1..3070,gap(117), CO ABVD02316666.1:1..31926,gap(3583),ABVD02316667.1:1..24225,gap(143), CO ABVD02316668.1:1..26515,gap(20),ABVD02316669.1:1..868,gap(149), CO ABVD02316670.1:1..27632,gap(20),ABVD02316671.1:1..60577,gap(20), CO ABVD02316672.1:1..53071,gap(25),ABVD02316673.1:1..74238,gap(20), CO ABVD02316674.1:1..14023,gap(50),ABVD02316675.1:1..384,gap(20), CO ABVD02316676.1:1..168386,gap(163),ABVD02316677.1:1..7062,gap(20), CO ABVD02316678.1:1..227278) // ID KN190626; SV 1; linear; genomic DNA; CON; MAM; 10486 BP. XX AC KN190626; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257527, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-10486 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-10486 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 76fd3615dfafa4f4cb21c17ae77e3351. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..10486 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 726..2264 FT /estimated_length=1539 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316681.1:1..725,gap(1539),ABVD02316682.1:1..8222) // ID KN190627; SV 1; linear; genomic DNA; CON; MAM; 23657 BP. XX AC KN190627; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257529, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-23657 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-23657 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; a5c70175ed7cead82611d2c72338c931. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..23657 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 4277..4572 FT /estimated_length=296 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 5765..6346 FT /estimated_length=582 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 7273..7312 FT /estimated_length=40 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 20032..23420 FT /estimated_length=3389 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316684.1:1..4276,gap(296),ABVD02316685.1:1..1192,gap(582), CO ABVD02316686.1:1..926,gap(40),ABVD02316687.1:1..12719,gap(3389), CO ABVD02316688.1:1..237) // ID KN190628; SV 1; linear; genomic DNA; CON; MAM; 256277 BP. XX AC KN190628; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257531, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-256277 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-256277 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 1b98773e243dafde35042fa6d690710e. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..256277 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 11035..11292 FT /estimated_length=258 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 56813..56832 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 82191..82210 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 144668..144704 FT /estimated_length=37 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 199629..200241 FT /estimated_length=613 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 234838..235025 FT /estimated_length=188 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 249140..249159 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316690.1:1..11034,gap(258),ABVD02316691.1:1..45520,gap(20), CO ABVD02316692.1:1..25358,gap(20),ABVD02316693.1:1..62457,gap(37), CO ABVD02316694.1:1..54924,gap(613),ABVD02316695.1:1..34596,gap(188), CO ABVD02316696.1:1..14114,gap(20),ABVD02316697.1:1..7118) // ID KN190629; SV 1; linear; genomic DNA; CON; MAM; 362507 BP. XX AC KN190629; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257532, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-362507 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-362507 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; c8b131a2524394c0d54157cdd1d211cc. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..362507 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 5840..6438 FT /estimated_length=599 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 7663..8919 FT /estimated_length=1257 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 15076..15188 FT /estimated_length=113 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 61154..62680 FT /estimated_length=1527 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 64218..64237 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 81997..82271 FT /estimated_length=275 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 132064..133110 FT /estimated_length=1047 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 134374..134393 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 179561..179580 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 180628..180647 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 208110..208387 FT /estimated_length=278 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 211291..211310 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 223620..223639 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 321767..321786 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 322355..322811 FT /estimated_length=457 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316698.1:1..5839,gap(599),ABVD02316699.1:1..1224,gap(1257), CO ABVD02316700.1:1..6156,gap(113),ABVD02316701.1:1..45965,gap(1527), CO ABVD02316702.1:1..1537,gap(20),ABVD02316703.1:1..17759,gap(275), CO ABVD02316704.1:1..49792,gap(1047),ABVD02316705.1:1..1263,gap(20), CO ABVD02316706.1:1..45167,gap(20),ABVD02316707.1:1..1047,gap(20), CO ABVD02316708.1:1..27462,gap(278),ABVD02316709.1:1..2903,gap(20), CO ABVD02316710.1:1..12309,gap(20),ABVD02316711.1:1..98127,gap(20), CO ABVD02316712.1:1..568,gap(457),ABVD02316713.1:1..39696) // ID KN190630; SV 1; linear; genomic DNA; CON; MAM; 49691 BP. XX AC KN190630; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257533, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-49691 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-49691 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 05cd8143febf7ffae38b795e8630e803. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..49691 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 799..2661 FT /estimated_length=1863 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316714.1:1..798,gap(1863),ABVD02316715.1:1..47030) // ID KN190631; SV 1; linear; genomic DNA; CON; MAM; 7371 BP. XX AC KN190631; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257534, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-7371 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-7371 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 50262fdfd99809f75e9647f60965fd54. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..7371 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 1068..1239 FT /estimated_length=172 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 5985..6004 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316716.1:1..1067,gap(172),ABVD02316717.1:1..4745,gap(20), CO ABVD02316718.1:1..1367) // ID KN190632; SV 1; linear; genomic DNA; CON; MAM; 5500 BP. XX AC KN190632; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257535, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-5500 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-5500 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 7167f354cb57c993d5549915ddb6185b. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..5500 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 2976..3489 FT /estimated_length=514 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316719.1:1..2975,gap(514),ABVD02316720.1:1..2011) // ID KN190633; SV 1; linear; genomic DNA; CON; MAM; 7643 BP. XX AC KN190633; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257536, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-7643 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-7643 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 50269820df9df618c01a6aa7edbe382a. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..7643 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 6399..7149 FT /estimated_length=751 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316721.1:1..6398,gap(751),ABVD02316722.1:1..494) // ID KN190634; SV 1; linear; genomic DNA; CON; MAM; 6144 BP. XX AC KN190634; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257537, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-6144 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-6144 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; eb6616b478b2c60c5d142410e0529fd3. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..6144 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 840..1350 FT /estimated_length=511 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 3301..4359 FT /estimated_length=1059 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316723.1:1..839,gap(511),ABVD02316724.1:1..1950,gap(1059), CO ABVD02316725.1:1..1785) // ID KN190635; SV 1; linear; genomic DNA; CON; MAM; 34450 BP. XX AC KN190635; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257538, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-34450 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-34450 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 609cd1fde99d5b09f5dda2b56baec875. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..34450 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 3807..3826 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 32837..32949 FT /estimated_length=113 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316726.1:1..3806,gap(20),ABVD02316727.1:1..29010,gap(113), CO ABVD02316728.1:1..1501) // ID KN190636; SV 1; linear; genomic DNA; CON; MAM; 35807 BP. XX AC KN190636; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257539, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-35807 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-35807 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; b15889920429df78378142edc97e38e8. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..35807 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 33922..35084 FT /estimated_length=1163 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316729.1:1..33921,gap(1163),ABVD02316730.1:1..723) // ID KN190637; SV 1; linear; genomic DNA; CON; MAM; 5749 BP. XX AC KN190637; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257540, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-5749 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-5749 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; d4efccd7d68b947ed8545daa5566af33. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..5749 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 532..574 FT /estimated_length=43 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316731.1:1..531,gap(43),ABVD02316732.1:1..5175) // ID KN190638; SV 1; linear; genomic DNA; CON; MAM; 5753 BP. XX AC KN190638; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257541, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-5753 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-5753 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 9f4afebf94f186c45418ca0ef6b3c7f9. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..5753 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 1167..2128 FT /estimated_length=962 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 2980..4953 FT /estimated_length=1974 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316733.1:1..1166,gap(962),ABVD02316734.1:1..851,gap(1974), CO ABVD02316735.1:1..800) // ID KN190639; SV 1; linear; genomic DNA; CON; MAM; 40437 BP. XX AC KN190639; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257543, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-40437 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-40437 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; b6231b3808c1f800d7c10b180dc43221. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..40437 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 371..390 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 873..892 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 1932..1951 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 14809..14828 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 38968..39388 FT /estimated_length=421 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316737.1:1..370,gap(20),ABVD02316738.1:1..482,gap(20), CO ABVD02316739.1:1..1039,gap(20),ABVD02316740.1:1..12857,gap(20), CO ABVD02316741.1:1..24139,gap(421),ABVD02316742.1:1..1049) // ID KN190640; SV 1; linear; genomic DNA; CON; MAM; 12234 BP. XX AC KN190640; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257544, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-12234 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-12234 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 43258db720b1fac68bf6ced82785da2a. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..12234 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 331..1346 FT /estimated_length=1016 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316743.1:1..330,gap(1016),ABVD02316744.1:1..10888) // ID KN190641; SV 1; linear; genomic DNA; CON; MAM; 9133 BP. XX AC KN190641; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257546, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-9133 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-9133 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 2e82168f63859637d65416e7441f7e52. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..9133 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 5797..7978 FT /estimated_length=2182 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316746.1:1..5796,gap(2182),ABVD02316747.1:1..1155) // ID KN190642; SV 1; linear; genomic DNA; CON; MAM; 126376 BP. XX AC KN190642; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257549, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-126376 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-126376 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 2c474b791e21eae6b56176927638ab0a. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..126376 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 27282..27962 FT /estimated_length=681 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 28859..29757 FT /estimated_length=899 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 30553..30572 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 32435..32467 FT /estimated_length=33 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 48713..48758 FT /estimated_length=46 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 53977..54200 FT /estimated_length=224 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 56000..56184 FT /estimated_length=185 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 61145..61817 FT /estimated_length=673 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 62901..64700 FT /estimated_length=1800 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 65737..66021 FT /estimated_length=285 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316750.1:1..27281,gap(681),ABVD02316751.1:1..896,gap(899), CO ABVD02316752.1:1..795,gap(20),ABVD02316753.1:1..1862,gap(33), CO ABVD02316754.1:1..16245,gap(46),ABVD02316755.1:1..5218,gap(224), CO ABVD02316756.1:1..1799,gap(185),ABVD02316757.1:1..4960,gap(673), CO ABVD02316758.1:1..1083,gap(1800),ABVD02316759.1:1..1036,gap(285), CO ABVD02316760.1:1..60355) // ID KN190643; SV 1; linear; genomic DNA; CON; MAM; 5927 BP. XX AC KN190643; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257550, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-5927 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-5927 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 87c2deac8a61f7175e6f3017c9a0e5d4. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..5927 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 5114..5133 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316761.1:1..5113,gap(20),ABVD02316762.1:1..794) // ID KN190644; SV 1; linear; genomic DNA; CON; MAM; 165289 BP. XX AC KN190644; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257551, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-165289 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-165289 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; b0b28af7d62cfb3a76e5e58286088eb8. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..165289 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 5691..5710 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 48229..48883 FT /estimated_length=655 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 50710..50897 FT /estimated_length=188 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 62216..63621 FT /estimated_length=1406 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 65107..66742 FT /estimated_length=1636 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 135735..135921 FT /estimated_length=187 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316763.1:1..5690,gap(20),ABVD02316764.1:1..42518,gap(655), CO ABVD02316765.1:1..1826,gap(188),ABVD02316766.1:1..11318,gap(1406), CO ABVD02316767.1:1..1485,gap(1636),ABVD02316768.1:1..68992,gap(187), CO ABVD02316769.1:1..29368) // ID KN190645; SV 1; linear; genomic DNA; CON; MAM; 5771 BP. XX AC KN190645; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257552, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-5771 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-5771 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 40ee7e96ad0e7a9110ee62bdfa2a5adc. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..5771 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 4678..5162 FT /estimated_length=485 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316770.1:1..4677,gap(485),ABVD02316771.1:1..609) // ID KN190646; SV 1; linear; genomic DNA; CON; MAM; 6410 BP. XX AC KN190646; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257553, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-6410 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-6410 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; f1a0b62720de9b9ffa1a3c05b21fd106. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..6410 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 3892..5319 FT /estimated_length=1428 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316772.1:1..3891,gap(1428),ABVD02316773.1:1..1091) // ID KN190647; SV 1; linear; genomic DNA; CON; MAM; 123398 BP. XX AC KN190647; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257555, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-123398 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-123398 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; ae076928fe2da3f1a7e7b378e1ddf765. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..123398 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 37638..37657 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 38173..38192 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 43614..43633 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 62276..62829 FT /estimated_length=554 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316775.1:1..37637,gap(20),ABVD02316776.1:1..515,gap(20), CO ABVD02316777.1:1..5421,gap(20),ABVD02316778.1:1..18642,gap(554), CO ABVD02316779.1:1..60569) // ID KN190648; SV 1; linear; genomic DNA; CON; MAM; 9857 BP. XX AC KN190648; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257556, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-9857 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-9857 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; c527fd39ebfbf2fb76da385b2124fb0a. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..9857 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 623..1759 FT /estimated_length=1137 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316780.1:1..622,gap(1137),ABVD02316781.1:1..8098) // ID KN190649; SV 1; linear; genomic DNA; CON; MAM; 2571 BP. XX AC KN190649; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257557, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-2571 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-2571 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 135841521b04b68d99056e591a1a5f33. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..2571 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 548..2135 FT /estimated_length=1588 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316782.1:1..547,gap(1588),ABVD02316783.1:1..436) // ID KN190650; SV 1; linear; genomic DNA; CON; MAM; 3005 BP. XX AC KN190650; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257558, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-3005 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-3005 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; eac4fa251ed214e0fc3d729fc39dadb5. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..3005 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 2326..2687 FT /estimated_length=362 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316784.1:1..2325,gap(362),ABVD02316785.1:1..318) // ID KN190651; SV 1; linear; genomic DNA; CON; MAM; 2753 BP. XX AC KN190651; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257559, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-2753 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-2753 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 882ed38bfd64bb6bcf287511450a0089. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..2753 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 966..1983 FT /estimated_length=1018 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316786.1:1..965,gap(1018),ABVD02316787.1:1..770) // ID KN190652; SV 1; linear; genomic DNA; CON; MAM; 3563 BP. XX AC KN190652; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257560, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-3563 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-3563 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; b0b43851fbb256901321acc44718623a. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..3563 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 1658..3185 FT /estimated_length=1528 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316788.1:1..1657,gap(1528),ABVD02316789.1:1..378) // ID KN190653; SV 1; linear; genomic DNA; CON; MAM; 6508 BP. XX AC KN190653; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257561, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-6508 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-6508 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; c4675258859efab11caec43d5b4e5336. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..6508 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 664..683 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 2234..2481 FT /estimated_length=248 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316790.1:1..663,gap(20),ABVD02316791.1:1..1550,gap(248), CO ABVD02316792.1:1..4027) // ID KN190654; SV 1; linear; genomic DNA; CON; MAM; 7115 BP. XX AC KN190654; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257562, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-7115 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-7115 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; d3d86aa47620dd94d51beb9ee5866001. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..7115 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 367..1205 FT /estimated_length=839 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316793.1:1..366,gap(839),ABVD02316794.1:1..5910) // ID KN190655; SV 1; linear; genomic DNA; CON; MAM; 7643 BP. XX AC KN190655; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257563, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-7643 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-7643 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; fae8bf170413205bf59f5ce9edc9812f. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand CC biological processes at work in human health and illness. CC Interestingly, recent research, published in the scientific journal CC PLoS One, says that sloth hairs contain compounds that can be used CC against bacteria, breast cancer cells and the parasites that cause CC malaria and Chagas disease. The sloth belongs to the superorder CC Xenarthra, which includes anteaters and armadillos. DNA used for CC sequencing the Hoffmann's Two-toed sloth provided, by the San Diego CC Zoo Institute for Conservation Research, was derived from a single CC female (OR478-KB4484) that was born in the wild, but for which CC birth location is uncertain. The sequencing/assembly strategy CC utilized Sanger 3730 (ABI) and Illumina reads. The coverages used CC included CC 3X of Sanger reads, and 60X of Illumina reads. The Illumina reads CC consisted of 30X of fragment, 15X of 3 Kb PE, and 15X of 8 Kb PE CC reads. Total assembled sequence coverage of the instrument data was CC 65X using a genome size estimate of 3.3Gb. The first TGI draft CC assembly was performed with MaSuRCA (Zimin et al 2013) and was CC referred to as C. hoffmanni 2.0. In the C. hoffmanni 2.0 assembly CC small scaffold gaps were closed with Illumina read mapping and CC local assembly. Contaminating contigs, trimmed vector in the form CC of X's and ambiguous bases as N's in the sequence were removed. All CC scaffolds (singletons) and contigs within scaffolds that were 200bp CC and less in length were removed from the assembly. Removing these CC contigs was the last step in preparation for submitting the final CC 2.0.1 assembly. The C. hoffmanni 2.0.1 assembly is made up of a CC total of 269K scaffolds with an N50 scaffold length nearly 364 Kb CC (N50 contig length was 64.5 Kb). The total contig assembly spans CC over 3.2 Gb. CC For questions regarding this Hoffmann's Two-toed sloth assembly CC please contact Dr. Wesley Warren, Washington University School of CC Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data CC are available via the NCBI SRA database. CC This work was supported by NIH grant HG003079 to Richard K. CC Wilson, Washington University School of Medicine. CC DNA samples can be obtained from: CC Biomaterials Review Group San Diego Zoo Institute for Conservation CC Research 15600 San Pasqual Valley Road Escondido, California 92027 CC or by emailing: biomaterialsreviewgroup@sandiegozoo.org CC Credits: CC DNA source - Dr. Oliver Ryder, San Diego Zoo Institute for CC Conservation Research CC Sequencing - The Genome Institute, Washington University School of CC Medicine, St Louis, MO. CC Sequence assembly - The Genome Institute, Washington University CC School of Medicine, St Louis, MO, and Aleksey Zimin, IPS&T, CC University of Maryland, College Park, MD. CC Citation upon use of this assembly in a manuscript: CC It is requested that users of this Choloepus hoffmanni sequence CC assembly acknowledge Dr. Richard K. Wilson and The Genome CC Institute, Washington University School of Medicine in any CC publications that result from use of this sequence assembly. CC Assembly stats: CC *** Contiguity: Contig *** Total contig number: 370041 Total CC contig bases: 3223352558 bp Average contig length: 8711 bp Maximum CC contig length: 711720 bp N50 contig length: 64490 bp N50 contig CC number: 13390 CC *** Contiguity: Supercontig *** Total supercontig number: 269084 CC Average supercontig length: 11979 bp Maximum supercontig length: CC 3323232 bp N50 supercontig length: 363844 bp N50 supercontig CC number: 2401 CC *** Scaffold Distribution *** Scaffolds > 1M: 301 Scaffold CC 250K--1M: 3339 Scaffold 100K--250K: 3149 Scaffold 10--100K: 13894 CC Scaffold 5--10K: 9091 Scaffold 2--5K: 17154 Scaffold 0--2K: 222156. CC ##Genome-Assembly-Data-START## CC Assembly Method :: MaSuRCA v. May 2014 CC Assembly Name :: C_hoffmanni-2.0.1 CC Genome Coverage :: 65x CC Sequencing Technology :: Illumina CC ##Genome-Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..7643 FT /organism="Choloepus hoffmanni" FT /chromosome="Unknown" FT /isolate="OR478-KB4484" FT /mol_type="genomic DNA" FT /sex="female" FT /db_xref="taxon:9358" FT assembly_gap 1620..1639 FT /estimated_length=20 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" FT assembly_gap 4901..6806 FT /estimated_length=1906 FT /gap_type="within scaffold" FT /linkage_evidence="paired-ends" XX CO join(ABVD02316795.1:1..1619,gap(20),ABVD02316796.1:1..3261,gap(1906), CO ABVD02316797.1:1..837) // ID KN190656; SV 1; linear; genomic DNA; CON; MAM; 14927 BP. XX AC KN190656; ABVD02000000; XX PR Project:PRJNA30809; XX DT 01-OCT-2014 (Rel. 122, Created) DT 01-OCT-2014 (Rel. 122, Last updated, Version 1) XX DE Choloepus hoffmanni isolate OR478-KB4484 unplaced genomic scaffold DE Scaffold257564, whole genome shotgun sequence. XX KW . XX OS Choloepus hoffmanni (Hoffmann's two-fingered sloth) OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Xenarthra; Pilosa; Folivora; Megalonychidae; Choloepus. XX RN [1] RP 1-14927 RA Gnerre S., Heiman D., Young S., Fulton L., Delehaunty K., Minx P., RA Chinwalla A., Mardis E., Wilson R., Warren W.; RT ; RL Submitted (29-AUG-2008) to the INSDC. RL Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, MA RL 02142, USA XX RN [2] RP 1-14927 RA Wilson R.K., Warren W., Ryder O., Zimin A.; RT ; RL Submitted (30-JUL-2014) to the INSDC. RL The Genome Institute, Washington University School of Medicine, 4444 Forest RL Park, St. Louis, MO 63108, USA XX DR MD5; 411c83f16068a12e68d06678beda32db. DR ENA; ABVD02000000; SET. DR ENA; ABVD00000000; SET. DR BioSample; SAMN02146716. XX CC Background: The Hoffmann's Two-toed sloth, Choloepus hoffmanni, was CC selected by NHGRI for sequencing to inform the human genome through CC comparative genomics. Sequencing the genomes of diverse organisms CC such as the sloth, is a powerful tool to better understand