Identification and allele mining of new candidate genes underlying rice grain weight and grain shape by genome-wide association study

文献类型： 外文期刊

第一作者： Niu, Yanan

作者： Niu, Yanan;Chen, Tianxiao;Wang, Chunchao;Zhu, Shuangbing;Wu, Zhichao;Zheng, Tianqing;Zhang, Fan;Xu, Jianlong;Niu, Yanan;Chen, Tianxiao;Chen, Tianxiao;Chen, Kai;Shen, Congcong;Chen, Huizhen;Xu, Jianlong;Chen, Huizhen

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关键词： Rice germplasm; Grain shape; Grain weight; Quantitative trait nucleotides (QTNs); Favorable haplotype

期刊名称：BMC GENOMICS （ 影响因子：3.969； 五年影响因子：4.478 ）

ISSN： 1471-2164

年卷期： 2021 年 22 卷 1 期

页码：

收录情况： SCI

摘要： Background Grain weight and grain shape are important agronomic traits that affect the grain yield potential and grain quality of rice. Both grain weight and grain shape are controlled by multiple genes. The 3,000 Rice Genomes Project (3 K RGP) greatly facilitates the discovery of agriculturally important genetic variants and germplasm resources for grain weight and grain shape. Results Abundant natural variations and distinct phenotic differentiation among the subgroups in grain weight and grain shape were observed in a large population of 2,453 accessions from the 3 K RGP. A total of 21 stable quantitative trait nucleotides (QTNs) for the four traits were consistently identified in at least two of 3-year trials by genome-wide association study (GWAS), including six new QTNs (qTGW3.1, qTGW9, qTGW11, qGL4/qRLW4, qGL10, and qRLW1) for grain weight and grain shape. We further predicted seven candidate genes (Os03g0186600, Os09g0544400, Os11g0163600, Os04g0580700, Os10g0399700, Os10g0400100 and Os01g0171000) for the six new QTNs by high-density association and gene-based haplotype analyses. The favorable haplotypes of the seven candidate genes and five previously cloned genes in elite accessions with high TGW and RLW are also provided. Conclusions Our results deepen the understanding of the genetic basis of grain weight and grain shape in rice and provide valuable information for improving rice grain yield and grain quality through molecular breeding.

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