A whole-genome assembly of the domestic cow, Bos taurus
A whole-genome assembly of the domestic cow, Bos taurus
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Date
2009-04-29
Authors
Zimin, Aleksey V
Delcher, Arthur L
Florea, Liliana
Kelley, David R
Schatz, Michael C
Puiu, Daniela
Hanrahan, Finnian
Pertea, Geo
Van Tassell, Curtis P
Sonstegard, Tad S
Advisor
Citation
Zimin, A. V., Marcais, G., Roberts, M., Subramanian, P., Yorke, J. A., Delcher, A. L., Florea, L., ... Sonstegard, T. S. (April 24, 2009). A whole-genome assembly of the domestic cow, Bos taurus. Genome Biology, 10, 4.
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Abstract
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.