Genome sequence and genetic diversity of the common carp, Cyprinus carpio

被引：548

作者：

Xu, Peng ^{[1
]}

Zhang, Xiaofeng ^{[2
]}

Wang, Xumin ^{[3
]}

Li, Jiongtang ^{[1
]}

Liu, Guiming ^{[3
]}

Kuang, Youyi ^{[2
]}

Xu, Jian ^{[1
]}

Zheng, Xianhu ^{[2
]}

Ren, Lufeng ^{[3
]}

Wang, Guoliang ^{[3
]}

Zhang, Yan ^{[1
]}

Huo, Linhe ^{[3
]}

Zhao, Zixia ^{[1
]}

Cao, Dingchen ^{[2
]}

Lu, Cuiyun ^{[2
]}

Li, Chao ^{[2
]}

Zhou, Yi ^{[4
,5
]}

Liu, Zhanjiang ^{[1
,6
]}

Fan, Zhonghua ^{[3
]}

Shan, Guangle ^{[3
]}

Li, Xingang ^{[3
]}

Wu, Shuangxiu ^{[3
]}

Song, Lipu ^{[3
]}

Hou, Guangyuan ^{[1
]}

Jiang, Yanliang ^{[1
]}

Jeney, Zsigmond ^{[7
]}

Yu, Dan ^{[3
]}

Wang, Li ^{[3
]}

Shao, Changjun ^{[3
]}

Song, Lai ^{[3
]}

Sun, Jing ^{[3
]}

Ji, Peifeng ^{[1
]}

Wang, Jian ^{[1
]}

Li, Qiang ^{[1
]}

Xu, Liming ^{[1
]}

Sun, Fanyue ^{[6
]}

Feng, Jianxin ^{[8
]}

Wang, Chenghui ^{[9
]}

Wang, Shaolin ^{[10
]}

Wang, Baosen ^{[1
]}

Li, Yan ^{[1
]}

Zhu, Yaping ^{[1
]}

Xue, Wei ^{[1
]}

Zhao, Lan ^{[1
]}

Wang, Jintu ^{[1
]}

Gu, Ying ^{[2
]}

Lv, Weihua ^{[2
]}

Wu, Kejing ^{[3
]}

Xiao, Jingfa ^{[3
]}

Wu, Jiayan ^{[3
]}

机构：

[1] Chinese Acad Fishery Sci, Ctr Appl Aquat Genom, Beijing, Peoples R China

[2] Chinese Acad Fishery Sci, Heilongjiang River Fisheries Res Inst, Harbin, Peoples R China

[3] Chinese Acad Sci, Key Lab Genome Sci & Informat, Beijing Inst Genom, Beijing, Peoples R China

[4] Harvard Univ, Sch Med, Stem Cell Program, Div Hematol & Oncol,Boston Childrens Hosp, Boston, MA USA

[5] Harvard Univ, Sch Med, Dana Farber Canc Inst, Boston, MA 02115 USA

[6] Auburn Univ, Dept Fisheries & Allied Aquacultures, Fish Mol Genet & Biotechnol Lab, Auburn, AL 36849 USA

[7] Res Inst Fisheries Aquaculture & Irrigat, Szarvas, Hungary

[8] Henan Acad Fishery Sci, Zhengzhou, Peoples R China

[9] Shanghai Ocean Univ, Coll Fisheries & Life Sci, Shanghai, Peoples R China

[10] Univ Virginia, Dept Psychiat & Neurobiol Sci, Charlottesville, VA USA

来源：

NATURE GENETICS | 2014年 / 46卷 / 11期

基金：

中国国家自然科学基金;

关键词：

LINKAGE MAP; EVOLUTION; DUPLICATION; FISH; L; MICROSATELLITES; ANNOTATION; INSIGHTS; REVEALS;

D O I：

10.1038/ng.3098

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

The common carp, Cyprinus carpio, is one of the most important cyprinid species and globally accounts for 10% of freshwater aquaculture production. Here we present a draft genome of domesticated C. carpio (strain Songpu), whose current assembly contains 52,610 protein-coding genes and approximately 92.3% coverage of its paleotetraploidized genome (2n = 100). The latest round of whole-genome duplication has been estimated to have occurred approximately 8.2 million years ago. Genome resequencing of 33 representative individuals from worldwide populations demonstrates a single origin for C. carpio in 2 subspecies (C. carpio Haematopterus and C. carpio carpio). Integrative genomic and transcriptomic analyses were used to identify loci potentially associated with traits including scaling patterns and skin color. In combination with the high-resolution genetic map, the draft genome paves the way for better molecular studies and improved genome-assisted breeding of C. carpio and other closely related species.

引用

页码：1212 / 1219

页数：8

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