水稻耐冷基因qCTS-9的核苷酸多样性及单倍型分析  

Nucleotide Diversity and Haplotype Analysis of qCTS-9 Gene Related to Cold Tolerance in Rice

作　　者：郭玉静 陈祖武[2] 董铮 李小湘[2] 刘文强[2] 郭梁 薛可欣 郑晓明[3,4] 逄洪波 潘孝武 GUO Yujing;CHEN Zuwu;DONG Zheng;LI Xiaoxiang;LIU Wenqiang;GUO Liang;XUE Kexin;ZHENG Xiaoming;PANG Hongbo;PAN Xiaowu(Longping Branch,College of Biology,Hunan University,Changsha 410125;Rice Research Institute,Hunan Academy of Agricultural Sciences,Changsha 410125;Institute of Crop Sciences,Chinese Academy of Agricultural Sciences,Beijing 100081;Sanya National Research Institute of Breeding in Hainan,Chinese Academy of Agricultural Sciences,Sanya 571700,Hainan;College of Life Science,Shenyang Normal University,Shenyang 110034)

机构地区：[1]湖南大学生物学院隆平分院,长沙410125 [2]湖南省农业科学院水稻研究所,长沙410125 [3]中国农业科学院作物科学研究所,北京100081 [4]三亚中国农业科学院国家南繁研究院,海南三亚571700 [5]沈阳师范大学生命科学学院,沈阳110034

出　　处：《植物遗传资源学报》2024年第10期1748-1755,I0034-I0039,共14页Journal of Plant Genetic Resources

基　　金：湖南省科技创新计划项目(2023NK1010,2021NK1011);国家自然科学基金项目(32341026)~~。

摘　　要：qCTS-9是在多种苗期低温条件下稳定发挥作用的水稻耐冷基因,研究其耐冷优异单倍型及适应性进化模式,有利于为水稻耐冷育种提供基因资源和技术支撑。本研究利用116份栽培稻(Oryza sativa L.)和37份普通野生稻(Oryza rufipogon Griff.),对qCTS-9基因的核苷酸多样性及单倍型进行了分析。结果表明,qCTS-9基因编码区内的14个SNPs组成了8种单倍型,其中的4个非同义SNPs组成3种功能单倍型,这3种功能单倍型之间表现出显著的耐冷性差异,编码区的第1535 bp处SNP可能是qCTS-9基因的关键变异位点。对qCTS-9基因启动子区顺式作用元件进行分析后发现,相比于野生稻和粳稻,低温敏感籼稻Hap4单倍型材料中-1107 bp有一个SNP(G→A),导致该处的MYB识别位点缺失,这个自然变异可能与籼稻耐冷性下降相关。野生稻包含栽培稻中qCTS-9基因的大部分变异,但在编码区及启动子顺式作用元件中无独有的变异位点;从野生稻向籼粳分化的过程中,耐冷相关等位或突变被固定和扩展,进而增强了其区域适应性。qCTS-9 is reported to be a rice cold-tolerant gene,which functions stably under a wide range of low temperature conditions at seedling stage.Detailed knowledge of the haplotype and adaptive evolution pattern of qCTS-9 will provide support for breeding cold-tolerant rice varieties.In this study,116 accessions of cultivated rice(Oryza sativa L.)and 37 accessions of wild rice(Oryza rufipogon Griff.)were used to analyze the nucleotide diversity and haplotypes of qCTS-9.There are a total of 14 SNPs in the coding region of qCTS-9,and these SNPs comprised eight haplotypes.Four non-synonymous SNPs constituted three functional haplotypes,which showed significant differences in cold tolerance.The SNP at the 1535 bp in the coding region was hypothesized to be the key mutation site of qCTS-9.The analysis of cis-acting elements in the promoter region of qCTS-9 showed that a SNP(G→A)at-1107 bp resulted in the deletion of a MYB recognition site in the cold-sensitive haplotype Hap4,which may lead to a decrease in cold tolerance in indica rice.Wild rice contains most of the variations of qCTS-9 gene in cultivated rice,but it does not have any unique variant sites within the coding region and promoter cis-acting elements.During the differentiation from wild rice to indica and japonica rice,cold-tolerant related alleles or mutations were fixed and expanded,which in turn enhanced its regional adaptability.

关 键 词：水稻 耐冷性 qCTS-9 核苷酸多样性 单倍型 驯化 

分 类 号：S511[农业科学—作物学]