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

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

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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 22 345 and 27 610 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.

super pan-genomeexpression quantitative trait lociGWASsalt tolerancerice

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

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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

Institute of Wetland Agriculture and Ecology,Shandong Academy of Agricultural Sciences,Jinan 250100,China

State Key Laboratory of Rice Biology,China National Rice Research Institute,Hangzhou 310006,China

National Key Facility for Crop Gene Resources and Genetic Improvement,Institute of Crop Science,Chinese Academy of Agricultural Sciences,Beijing 100081,China

Yazhouwan National Laboratory,Sanya 572024,China

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国家自然科学基金国家自然科学基金深圳市科技计划Innovation Program of Chinese Academy of Agricultural sciences,Youth Innovation of Chinese Academy of Agricultural Sciences中国博士后科学基金国家重点研发计划

3218810232372148RCBS20221008093339096Y2023QC362023M7338392022YFE0139400

2024

10.1093/nsr/nwae043

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ISSN：
年,卷(期)：2024.11(4)
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