Journal
GENOME BIOLOGY
Volume 10, Issue 4, Pages -Publisher
BMC
DOI: 10.1186/gb-2009-10-4-r42
Keywords
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Funding
- NIH [R01-LM006845, R01-GM083873, R01-HG002945]
- USDA [200804049]
- NATIONAL HUMAN GENOME RESEARCH INSTITUTE [R01HG002945] Funding Source: NIH RePORTER
- NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES [R01GM083873] Funding Source: NIH RePORTER
- NATIONAL LIBRARY OF MEDICINE [R01LM006845] Funding Source: NIH RePORTER
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Background: The genome of the domestic cow, Bos taurus, was sequenced using a mixture of hierarchical and whole-genome shotgun sequencing methods. Results: We have assembled the 35 million sequence reads and applied a variety of assembly improvement techniques, creating an assembly of 2.86 billion base pairs that has multiple improvements over previous assemblies: it is more complete, covering more of the genome; thousands of gaps have been closed; many erroneous inversions, deletions, and translocations have been corrected; and thousands of single-nucleotide errors have been corrected. Our evaluation using independent metrics demonstrates that the resulting assembly is substantially more accurate and complete than alternative versions. Conclusions: By using independent mapping data and conserved synteny between the cow and human genomes, we were able to construct an assembly with excellent large-scale contiguity in which a large majority (approximately 91%) of the genome has been placed onto the 30 B. taurus chromosomes. We constructed a new cow-human synteny map that expands upon previous maps. We also identified for the first time a portion of the B. taurus Y chromosome.
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