Genome-Wide Association Study Reveals a Genetic Mechanism of Salt Tolerance Germinability in Rice (Oryza sativa L.)

作者：Caijing Li, Changsheng Lu, Baoli Zou, Mengmeng Yang, Guangliang Wu, Peng Wang, Cheng Qin, Yanning Wang, Qi Zhong, Shiying Huang, Tao Huang, Haohua He, Jianmin Bian · 发表于：Frontiers in Plant Science · 年份：2022 · DOI：10.3389/fpls.2022.934515 · 被引用次数：10 · 研究领域：Genetic Mapping and Diversity in Plants and Animals、Rice Cultivation and Yield Improvement、Plant Stress Responses and Tolerance

Salt stress is one of the factors that limits rice production, and an important task for researchers is to cultivate rice with strong salt tolerance. In this study, 211 rice accessions were used to determine salt tolerance germinability (STG) indices and conduct a genome-wide association study (GWAS) using 36,727 SNPs. The relative germination energy (RGE), relative germination index (RGI), relative vigor index (RVI), relative mean germination time (RMGT), relative shoot length (RSL), and relative root length (RRL) were used to determine the STG indices in rice. A total of 43 QTLs, including 15 for the RGE, 6 for the RGI, 7 for the RVI, 3 for the RMGT, 1 for the RSL, and 11 for the RRL, were identified on nine chromosome regions under 60 and 100 mM NaCl conditions. For these STG-related QTLs, 18 QTLs were co-localized with previous studies, and some characterized salt-tolerance genes, such as OsCOIN, OsHsp17.0 , and OsDREB2A , are located in these QTL candidates. Among the 25 novel QTLs, qRGE60-1-2 co-localized with qRGI60-1-1 on chromosome 1, and qRGE60-3-1 and qRVI60-3-1 co-localized on chromosome 3. According to the RNA-seq database, 16 genes, including nine for qRGE60-1-2 ( qRGI60-1-1 ) and seven for qRGE60-3-1 ( qRVI60-3-1 ), were found to show significant differences in their expression levels between the control and salt treatments. Furthermore, the expression patterns of these differentially expressed genes were analyzed, and nine genes (five for qRGE60-1-2 and four f...