A map of rice genome variation reveals the origin of cultivated rice

被引：1255

作者：

Huang, Xuehui ^{[1
]}

Kurata, Nori ^{[2
,3
]}

Wei, Xinghua ^{[4
]}

Wang, Zi-Xuan ^{[1
,2
,3
]}

Wang, Ahong ^{[1
]}

Zhao, Qiang ^{[1
]}

Zhao, Yan ^{[1
]}

Liu, Kunyan ^{[1
]}

Lu, Hengyun ^{[1
]}

Li, Wenjun ^{[1
]}

Guo, Yunli ^{[1
]}

Lu, Yiqi ^{[1
]}

Zhou, Congcong ^{[1
]}

Fan, Danlin ^{[1
]}

Weng, Qijun ^{[1
]}

Zhu, Chuanrang ^{[1
]}

Huang, Tao ^{[1
]}

Zhang, Lei ^{[1
]}

Wang, Yongchun ^{[1
]}

Feng, Lei ^{[1
]}

Furuumi, Hiroyasu ^{[2
,3
]}

Kubo, Takahiko ^{[2
,3
]}

Miyabayashi, Toshie ^{[2
,3
]}

Yuan, Xiaoping ^{[4
]}

Xu, Qun ^{[4
]}

Dong, Guojun ^{[4
]}

Zhan, Qilin ^{[1
]}

Li, Canyang ^{[1
]}

Fujiyama, Asao ^{[2
,3
]}

Toyoda, Atsushi ^{[2
,3
]}

Lu, Tingting ^{[1
]}

Feng, Qi ^{[1
]}

Qian, Qian ^{[4
]}

Li, Jiayang ^{[5
]}

Han, Bin ^{[1
,6
]}

机构：

[1] Chinese Acad Sci, Shanghai Inst Biol Sci, Inst Plant Physiol & Ecol, Natl Ctr Gene Res, Shanghai 200233, Peoples R China

[2] Natl Inst Genet, Plant Genet Lab, Mishima, Shizuoka 4118540, Japan

[3] Natl Inst Genet, Comparat Genom Lab, Mishima, Shizuoka 4118540, Japan

[4] Chinese Acad Agr Sci, China Natl Rice Res Inst, State Key Lab Rice Biol, Hangzhou 310006, Zhejiang, Peoples R China

[5] Chinese Acad Sci, Inst Genet & Dev Biol, Natl Ctr Plant Gene Res, State Key Lab Plant Genom, Beijing 100101, Peoples R China

[6] Chinese Acad Sci, Beijing Inst Genom, Beijing 100029, Peoples R China

来源：

NATURE | 2012年 / 490卷 / 7421期

基金：

中国国家自然科学基金;

关键词：

WIDE ASSOCIATION; ARABIDOPSIS-THALIANA; ORYZA-RUFIPOGON; GENETIC-CONTROL; OPEN SOFTWARE; GRAIN LENGTH; WILD-RICE; MAJOR QTL; DOMESTICATION; POPULATIONS;

D O I：

10.1038/nature11532

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Crop domestications are long-term selection experiments that have greatly advanced human civilization. The domestication of cultivated rice (Oryza sativa L.) ranks as one of the most important developments in history. However, its origins and domestication processes are controversial and have long been debated. Here we generate genome sequences from 446 geographically diverse accessions of the wild rice species Oryza rufipogon, the immediate ancestral progenitor of cultivated rice, and from 1,083 cultivated indica and japonica varieties to construct a comprehensive map of rice genome variation. In the search for signatures of selection, we identify 55 selective sweeps that have occurred during domestication. In-depth analyses of the domestication sweeps and genome-wide patterns reveal that Oryza sativa japonica rice was first domesticated from a specific population of O. rufipogon around the middle area of the Pearl River in southern China, and that Oryza sativa indica rice was subsequently developed from crosses between japonica rice and local wild rice as the initial cultivars spread into South East and South Asia. The domestication-associated traits are analysed through high-resolution genetic mapping. This study provides an important resource for rice breeding and an effective genomics approach for crop domestication research.

引用

页码：497 / +

页数：7

共 62 条

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