Genome-wide association analysis and genomic prediction of salt tolerance trait in soybean germplasm

文献类型： 外文期刊

第一作者： Xu, Rongqing

作者： Xu, Rongqing;Yang, Qing;Liu, Zhi;Shi, Xiaolei;Wu, Xintong;Chen, Yuehan;Du, Xinyu;Gao, Qiqi;He, Di;Yan, Long;Xu, Rongqing;Du, Xinyu;Tao, Peijun;Shi, Ainong

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关键词： soybean; salt stress; genome-wide association study; genomic prediction; germplasm

期刊名称：FRONTIERS IN PLANT SCIENCE （ 影响因子：4.8； 五年影响因子：5.7 ）

ISSN： 1664-462X

年卷期： 2024 年 15 卷

页码：

收录情况： SCI

摘要： Introduction Soybean is an important protein and oil crop, and improving yield has traditionally been a major breeding goal. However, salt stress is an important abiotic factor that can severely impair soybean yield by disrupting metabolic processes, inhibiting photosynthesis, and hindering plant growth, ultimately leading to a decrease in productivity.Methods This study utilized phenotypic and genotypic data from 563 soybean germplasms sourced from over 20 countries. Employing four distinct models-we performed a genome-wide association study (GWAS) using four models, including MLM, MLMM, FarmCPU, and BLINK in GAPIT 3, we conducted a Genome-Wide Association Study (GWAS) to identify single nucleotide polymorphism (SNP) associated with salt tolerance in soybean. Subsequently, these identified SNP were further analyzed for candidate gene discovery. Using 34,181 SNPs for genomic prediction (GP) to assess prediction accuracy.Results Our study identified 10 SNPs significantly associated with salt tolerance, located on chromosomes 1, 2, 3, 7, and 16. And we identified 11 genes within a 5 kb window upstream and downstream of the QTLs on chromosomes 1, 3, and 16. Utilizing the GWAS-derived SNP marker sets for genomic prediction (GP) yielded r-values greater than 0.35, indicating a higher level of accuracy. This suggests that genomic selection for salt tolerance is feasible.Discussion The 10 identified SNP markers and candidate genes in this study provide a valuable reference for screening and developing salt-tolerant soybean germplasm resources.

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