Uncovering key salt-tolerant regulators through a combined eQTL and GWAS analysis using the super pan-genome in rice  

作　　者：Hua Wei Xianmeng Wang Zhipeng Zhang Longbo Yang Qianqian Zhang Yilin Li Huiying He Dandan Chen Bin Zhang Chongke Zheng Yue Leng Xinglan Cao Yan Cui Chuanlin Shi Yifan Liu Yang Lv Jie Ma Wenchuang He Xiangpei Liu Qiang Xu Qiaoling Yuan Xiaoman Yu Tianyi Wang Hongge Qian Xiaoxia Li Bintao Zhang Hong Zhang Wu Chen Mingliang Guo Xiaofan Dai Yuexing Wang Xiaoming Zheng Longbiao Guo Xianzhi Xie Qian Qian Lianguang Shang 

机构地区：[1]Shenzhen Branch,Guangdong Laboratory of Lingnan Modern Agriculture,Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs,Agricultural Genomics Institute at Shenzhen,Chinese Academy of Agricultural Sciences,Shenzhen 518120,China [2]Institute of Wetland Agriculture and Ecology,Shandong Academy of Agricultural Sciences,Jinan 250100,China [3]State Key Laboratory of Rice Biology,China National Rice Research Institute,Hangzhou 310006,China [4]National Key Facility for Crop Gene Resources and Genetic Improvement,Institute of Crop Science,Chinese Academy of Agricultural Sciences,Beijing 100081,China [5]Yazhouwan National Laboratory,Sanya 572024,China

出　　处：《National Science Review》2024年第4期49-63,共15页国家科学评论（英文版）

基　　金：supported by the National Natural Science Foundation of China (32188102 and 32372148);Shenzhen Science and Technology Program (RCBS20221008093339096);Innovation Program of Chinese Academy of Agricultural Sciences,Youth Innovation of Chinese Academy of Agricultural Sciences (Y2023QC36);China Postdoctoral Science Foundation (2023M733839);National Key R&D Program of China(2022YFE0139400)

摘　　要：For sessile plants,gene expression plays a pivotal role in responding to salinity stress by activating or suppressing specific genes.However,our knowledge of genetic variations governing gene expression in response to salt stress remains limited in natural germplasm.Through transcriptome analysis of the Global Mini-Core Rice Collection consisting of a panel of 202 accessions,we identified 22345 and 27610 expression quantitative trait loci associated with the expression of 7787 and 9361 eGenes under normal and salt-stress conditions,respectively,leveraging the super pan-genome map.Notably,combined with genome-wide association studies,we swiftly pinpointed the potential candidate gene STG5—a major salt-tolerant locus known as qSTS5.Intriguingly,STG5 is required for maintaining Na^(+)/K^(+)homeostasis by directly regulating the transcription of multiple members of the OsHKT gene family.Our study sheds light on how genetic variants influence the dynamic changes in gene expression responding to salinity stress and provides a valuable resource for the mining of salt-tolerant genes in the future.

关 键 词：super pan-genome expression quantitative trait loci GWAS salt tolerance RICE 

分 类 号：S511[农业科学—作物学]