Rapid diversification of five Oryza AA genomes associated with rice adaptation

文献类型： 外文期刊

第一作者： Zhang, Qun-Jie

作者： Zhang, Qun-Jie;Zhu, Ting;Xia, En-Hua;Shi, Chao;Liu, Yun-Long;Zhang, Yun;Liu, Yuan;Jiang, Wen-Kai;Zhao, You-Jie;Mao, Shu-Yan;Zhang, Li-Ping;Huang, Hui;Jiao, Jun-Ying;Xu, Ping-Zhen;Yao, Qiu-Yang;Yang, Li-Li;Gao, Ju;Gao, Li-Zhi;Zhang, Qun-Jie;Zhu, Ting;Xia, En-Hua;Shi, Chao;Liu, Yuan;Yao, Qiu-Yang;Zeng, Fan-Chun;Gao, Ju;Tao, Da-Yun;Wang, Yue-Ju;Bennetzen, Jeffrey L.

作者机构：

关键词： comparative genomics;full-genome sequencing;genomic variation;positive selection;Oryza

期刊名称：PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA （ 影响因子：11.205； 五年影响因子：12.291 ）

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年卷期：

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收录情况： SCI

摘要： Comparative genomic analyses among closely related species can greatly enhance our understanding of plant gene and genome evolution. We report de novo-assembled AA-genome sequences for Oryza nivara, Oryza glaberrima, Oryza barthii, Oryza glumaepatula, and Oryza meridionalis. Our analyses reveal massive levels of genomic structural variation, including segmental duplication and rapid gene family turnover, with particularly high instability in defense-related genes. We show, on a genomic scale, how lineage-specific expansion or contraction of gene families has led to their morphological and reproductive diversification, thus enlightening the evolutionary process of speciation and adaptation. Despite strong purifying selective pressures on most Oryza genes, we documented a large number of positively selected genes, especially those genes involved in flower development, reproduction, and resistance-related processes. These diversifying genes are expected to have played key roles in adaptations to their ecological niches in Asia, South America, Africa and Australia. Extensive variation in noncoding RNA gene numbers, function enrichment, and rates of sequence divergence might also help account for the different genetic adaptations of these rice species. Collectively, these resources provide new opportunities for evolutionary genomics, numerous insights into recent speciation, a valuable database of functional variation for crop improvement, and tools for efficient conservation of wild rice germplasm.

分类号： N

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