A whole-genome assembly of the domestic cow, Bos taurus.
A whole-genome assembly of the domestic cow, Bos taurus.
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DOI：
10.1186/gb-2009-10-4-r42
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发表时间：
2009
期刊：
影响因子：
12.3
通讯作者：
Salzberg SL
中科院分区：
文献类型：
--
作者：
Zimin AV;Delcher AL;Florea L;Kelley DR;Schatz MC;Puiu D;Hanrahan F;Pertea G;Van Tassell CP;Sonstegard TS;Marçais G;Roberts M;Subramanian P;Yorke JA;Salzberg SL
一个28.6亿碱基对的奶牛全基因组组装，它填补了缺口，纠正了先前描述的倒位和缺失，并描述了Y染色体的一部分。
家牛（Bos taurus）的基因组是使用分级测序和全基因组鸟枪法测序相结合的方法进行测序的。
我们已经组装了3500万条序列读数，并应用了多种组装改进技术，创建了一个28.6亿碱基对的组装，与之前的组装相比有多项改进：它更完整，覆盖了更多的基因组；数千个缺口已被填补；许多错误的倒位、缺失和易位已被纠正；数千个单核苷酸错误已被纠正。我们使用独立指标进行的评估表明，最终的组装比其他版本要准确和完整得多。
通过使用独立的映射数据以及奶牛和人类基因组之间的保守同线性，我们能够构建一个具有出色大规模连续性的组装，其中大部分（约91%）的基因组已被定位到30条家牛染色体上。我们构建了一个新的奶牛 - 人类同线性图谱，它是对先前图谱的扩展。我们还首次鉴定了家牛Y染色体的一部分。
A cow whole-genome assembly of 2.86 billion base pairs that closes gaps and corrects previously-described inversions and deletions as well as describing a portion of the Y chromosome. The genome of the domestic cow, Bos taurus, was sequenced using a mixture of hierarchical and whole-genome shotgun sequencing methods. 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. 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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影响因子：
12.3
作者：
Phillippy AM;Schatz MC;Pop M
通讯作者：
Pop M
影响因子：
5.8
作者：
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Florea, L;Di Francesco, V;Sutton, G
通讯作者：
Sutton, G