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Comprehensive variation discovery and recovery of missing sequence in the pig genome using multiple de novo assembliesстатья
Статья опубликована в высокорейтинговом журнале
Информация о цитировании статьи получена из
Web of Science,
Scopus
Статья опубликована в журнале из списка Web of Science и/или Scopus
Дата последнего поиска статьи во внешних источниках: 19 декабря 2017 г.
- Авторы: Mingzhou Li, Chen Lei, Tian Shilin, Lin Yu, Tang Qianzi, Zhou Xuming, Diyan Li, Yeung Carol K.L., Che Tiandong, Jin Long, Yuhua Fu, Jideng Ma, Wang Xun, Jiang Anan, Lan Jing, Pan Qi, Liu Yingkai, Luo Zonggang, Guo Zongyi, Liu Haifeng, Zhu Li, Shuai Surong, Tang Guoqing, Zhao Jiugang, Jiang Yanzhi, Bai Lin, Zhang Shunhua, Mai Miaomiao, Changchun Li, Wang Dawei, Yiren Gu, Wang Guosong, Hongfeng Lu, Yan Li, Zhu Haihao, Zongwen Li, Ming Li, Gladyshev Vadim N., Jiang Zhi, Zhao Shuhong, Wang Jinyong, Ruiqiang Li, Xuewei Li
- Журнал: Genome Research
- Том: 27
- Номер: 5
- Год издания: 2016
- Издательство: Cold Spring Harbor Laboratory Press
- Местоположение издательства: United States
- Первая страница: 865
- Последняя страница: 874
- DOI: 10.1101/gr.207456.116
- Аннотация: Uncovering genetic variation through resequencing is limited by the fact that only sequences with similarity to the reference genome are examined. Reference genomes are often incomplete and cannot represent the full range of genetic diversity as a result of geographical divergence and independent demographic events. To more comprehensively characterize genetic variation of pigs (Sus scrofa), we generated de novo assemblies of nine geographically and phenotypically representative pigs from Eurasia. By comparing them to the reference pig assembly, we uncovered a substantial number of novel SNPs and structural variants, as well as 137.02-Mb sequences harboring 1737 protein-coding genes that were absent in the reference assembly, revealing variants left by selection. Our results illustrate the power of whole-genome de novo sequencing relative to resequencing and provide valuable genetic resources that enable effective use of pigs in both agricultural production and biomedical research.
- Добавил в систему: Гладышев Вадим Николаевич