Genetic dissection of eating and cooking qualities in different subpopulations of cultivated rice (Oryza sativaL.) through association mapping

文献类型： 外文期刊

第一作者： Zhao, Chunfang

作者： Zhao, Chunfang;Zhao, Ling;Zhao, Qingyong;Chen, Tao;Yao, Shu;Zhu, Zhen;Zhou, Lihui;Liang, Wenhua;Lu, Kai;Zhang, Yadong;Wang, Cailin;Nadaf, Altafhusian B.

作者机构：

关键词： Rice (Oryza sativaL; ); Eating and cooking quality; Population structure; Subpopulation; Association mapping

期刊名称：BMC GENETICS （ 影响因子：2.797； 五年影响因子：3.263 ）

ISSN： 1471-2156

年卷期： 2020 年 21 卷 1 期

页码：

收录情况： SCI

摘要： Background Eating and cooking qualities (ECQs) of rice (Oryza sativaL.) determine consumer acceptance and the economic value of rice varieties. The starch physicochemical properties, i.e. amylose content, gel consistency, gelatinization temperature and pasting viscosity are important indices for evaluating rice ECQs. Genetic factors are required for development of rice varieties with excellent ECQs and association mapping is one of the promising approaches for discovering such associated genetic factors. Results A genome-wide association mapping was performed on a set of 253 non-glutinous rice accessions consisting of 83indicaand 170japonicacultivated rice varieties through phenotyping for 11 ECQ traits in two consecutive years and genotyping with 210 polymorphic SSR and candidate-gene markers. These markers amplified 747 alleles with an average of 3.57 alleles per locus. The structure, phylogenetic relationship, and principal component analysis indicated a strong population differentiation betweenindicaandjaponicaaccessions and association mapping was thus undertaken withinindicaandjaponicasubpopulations. All traits showed a large phenotypic variation and highly significant phenotypic correlations were present between most of traits. A total of 33 and 30 loci were located for 11 ECQs inindicaandjaponicasubpopulations respectively. Most of associated loci were overlapped with starch synthesis-related genes (SSRGs), and theWxlocus gathered 14 associated loci with the largest effects on amylose content, gel consistency and pasting viscosities. Eight subpopulation specific markers,RM588,Wx-(CT)(n),SSIandSBE1forindicasubpopulation andRM550,Wx(mp),SSIIaandSBE4forjaponicasubpopulation, were identified, suggesting alleles of SSRGs showed the subspecific tendency. Nevertheless, allelic variation inSSIIashowed no tendency towards subspecies. One associated makerRM550detected injaponicasubpopulation for amylose content and pasting viscosity was verified a potential novel and stably expressed locus and could be selected for further fine mapping. Conclusion This study illustrated the potential for dissecting genetic factors of complex traits in domesticated rice subspecies and provided highly associated markers to facilitate marker-assisted selection for breeding high-qualityindicaorjaponicarice varieties.

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