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Journal of Integrative Agriculture
Journal of Integrative Agriculture  2025, Vol. 24 Issue (11): 4168-4182    DOI: 10.1016/j.jia.2024.03.030
Crop Science Advanced Online Publication | Current Issue | Archive | Adv Search |
Natural variation in SbTEF1 contributes to salt tolerance in sorghum seedlings 

Chang Liu1, Lei Tian1, Wenbo Yu1, Yu Wang1, Ziqing Yao1, Yue Liu2, Luomiao Yang3, Chunjuan Liu1, Xiaolong Shi1, Tao Liu4, Bingru Chen5, Zhenguo Wang6, Haiqiu Yu1, 7#, Yufei Zhou1#

1 College of Agriculture, Shenyang Agricultural University, Shenyang 110866, China

2 Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110866, China

3 College of Agriculture, Northeast Agricultural University, Harbin 150006, China

4 Institute of Sorghum Research, Baicheng Academy of Agricultural Sciences, Baicheng 137000, China

5 Institute of Sorghum Research, Jilin Academy of Agricultural Sciences, Changchun 130033, China

6 Institute of Sorghum Research, Tongliao Agriculture and Animal Husbandry Sciences, Tongliao 028000, China

7 Liaoning Agricultural Vocational and Technical College, Yingkou 115009, China

 Highlight 
● The sorghum salt tolerant gene SbTEF1 was identified by genome-wide association study (GWAS) and the PAV284 which located in the promoter region of SbTEF1 was the key regulatory locus governing the salt tolerant ability.
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摘要  盐胁迫是影响作物产量和品质的主要非生物胁迫因素。由于耐盐基因资源的匮乏，耐盐育种的进程受到了极大的限制。高粱是一种具有较强盐碱耐受性的作物，挖掘其耐盐基因显得尤为重要。本研究对186份核心高粱种质材料进行重测序，结合盐胁迫下相对根长及根鲜重表型进行全基因组关联分析。结果显示，在多重耐盐表型共定位区间内共有8个候选基因，结合数据库注释及盐胁迫下基因表达结果，SbTEF1（一种编码转录延长因子蛋白的基因）被确定为耐盐候选基因。在此基础上，结合连锁不平衡分析、基因克隆、基因单倍型分析及等位基因效应分析，发现位于SbTEF1启动子区域的PAV284通过调节盐胁迫情况下基因表达影响高粱的耐盐性。PAV284可作为分子标记，为高粱种质的耐盐改良及高粱耐盐品种培育提供技术支撑。

Abstract  

Salt stress is a major constraint to crop productivity and quality.  The limited availability of salt-tolerant genes poses significant challenges to breeding programs aimed at enhancing salt tolerance.  Sorghum displays a remarkable ability to withstand saline conditions; therefore, elucidating the genetic underpinnings of this trait is crucial.  This study entailed a comprehensive resequencing of 186 sorghum accessions to perform a genome-wide association study (GWAS) focusing on relative root length (RL) and root fresh weight (RFW) under salt stress conditions.  We identified eight candidate genes within a co-localized region, among which SbTEF1 - a gene encoding a transcription elongation factor protein - was deemed a potential candidate due to its annotation and expression pattern alterations under salt stress.  Haplotype analysis, gene cloning, linkage disequilibrium (LD) analysis, and allele effect analysis revealed that PAV284, located in the promoter region of SbTEF1, modulated gene expression under salt stress, which, in turn, influenced sorghum seedlings’ salt tolerance.  PAV284 holds promise as a genetic marker for selecting salt-tolerant germplasm via marker-assisted breeding, enhancing the development of salt-tolerant sorghum cultivars.

Keywords:  salt stress       GWAS       transcription elongation factor       sorghum (Sorghum biocolor L.)  
Received: 14 November 2023   Accepted: 03 January 2024 Online: 06 March 2024  
Fund: This work was supported by the Science and Technology Program in Liaoning Province, China (2022-BS-172), the China Agriculture Research System of MOF and MARA (CARS-06-14.5-A17) and the Guiding Funds of the Central Government for the Local Scientific and Technological Development Basic Research Program of Jilin Province, China (202002068JC).
About author:  #Correspondence Yufei Zhou, Tel: +86-24-88487135, E-mail: zhouyufei@syau.edu.cn; Haiqiu Yu, Tel: +86-24-88487135, E-mail: yuhaiqiu@syau.edu.cn
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Chang Liu, Lei Tian, Wenbo Yu, Yu Wang, Ziqing Yao, Yue Liu, Luomiao Yang, Chunjuan Liu, Xiaolong Shi, Tao Liu, Bingru Chen, Zhenguo Wang, Haiqiu Yu, Yufei Zhou. 2025. Natural variation in SbTEF1 contributes to salt tolerance in sorghum seedlings . Journal of Integrative Agriculture, 24(11): 4168-4182.

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