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Genome evolution and diversity of wild and cultivated rice species

文献类型： 外文期刊

作者： Long, Weixiong 1 ; He, Qiang 2 ; Wang, Yitao 2 ; Wang, Yu 2 ; Wang, Jie 1 ; Yuan, Zhengqing 3 ; Wang, Meijia 2 ; Chen, Wei 1 ; Luo, Lihua 1 ; Luo, Laiyang 1 ; Xu, Weibiao 1 ; Li, Yonghui 1 ; Li, Wei 2 ; Yan, Longan 1 ; Cai, Yaohui 1 ; Du, Huilong 2 ; Xie, Hongwei 1 ;

作者机构： 1.Jiangxi Acad Agr Sci, Jiangxi Superrice Res & Dev Ctr, Natl Engn Res Ctr Rice, Jiangxi Prov Key Lab Rice Germplasm Innovat & Bree, Nanchang, Peoples R China

2.Hebei Univ, Inst Life Sci & Green Dev, Hebei Basic Sci Ctr Biot Interact, Sch Life Sci, Baoding, Peoples R China

3.Wuhan Univ, Coll Life Sci, Wuhan, Peoples R China

期刊名称：NATURE COMMUNICATIONS （ 影响因子：15.7； 五年影响因子：17.2 ）

ISSN：

年卷期： 2024 年 15 卷 1 期

页码：

收录情况： SCI

摘要： Wild species of crops serve as a valuable germplasm resource for breeding of modern cultivars. Rice (Oryza sativa L.) is a vital global staple food. However, research on genome evolution and diversity of wild rice species remains limited. Here, we present nearly complete genomes of 13 representative wild rice species. By integrating with four previously published genomes for pangenome analysis, a total of 101,723 gene families are identified across the genus, including 9834 (9.67%) core gene families. Additionally, 63,881 gene families absent in cultivated rice species but present in wild rice species are discovered. Extensive structural rearrangements, sub-genomes exchanges, widespread allelic variations, and regulatory sequence variations are observed in wild rice species. Interestingly, expanded but less diverse disease resistance genes in the genomes of cultivated rice, likely due to the loss of some resistance genes and the fixing and amplification of genes encoding resistance genes to specific diseases during domestication and artificial selection. This study not only reveals natural variations valuable for gene-level studies and breeding selection but also enhances our understanding on rice evolution and domestication. The Oryza genus comprise two cultivated rice species and 20 extant wild species. Here the authors assemble genomes of 13 representative wild rice species, construct a super pangenome by integrating them with four previously reported genomes in the genus, and reveal the genome evolution and diversity within the genus.

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