茶树叶型性状的全基因组关联分析  

Genome⁃wide association analysis of tea leaf⁃type related traits

作　　者：王小萍[1] 王云[1] 熊元元 刘晓[1] 李明红 张厅[1] 赖谦 李春华[1] WANG Xiao-ping;WANG Yun;XIONG Yuan-yuan;LIU Xiao;LI Ming-hong;ZHANG Ting;LAI Qian;LI Chun-hua(Tea Research Institute of Sichuan Academy of Agricultural Sciences,Chengdu 610066,China;Economic Crops Station of Luzhou,Luzhou,Sichuan 646000,China;Agriculture and Rural Bureau of Gulin County,Luzhou,Sichuan 646500,China)

机构地区：[1]四川省农业科学院茶叶研究所,成都610066 [2]泸州市经济作物站,四川泸州646000 [3]古蔺县农业农村局,四川泸州646500

出　　处：《西南农业学报》2023年第11期2339-2347,共9页Southwest China Journal of Agricultural Sciences

基　　金：四川省自然基金项目(2023NSFSC0163);四川茶叶创新团队特色新品种选育及示范推广(sccxtd⁃2023⁃10);四川省财政自主专项(2022ZZCX055);四川省“十四五”茶树育种攻关项目(2021YFYZ0025);四川省农业科学院“1+9”揭榜挂帅科技攻关。

摘　　要：【目的】发掘与叶型性状关联的SNP位点,为茶树分子标记辅助育种提供参考依据。【方法】对收集于四川本地的91份茶树自然群体开展简化基因组测序(GBS),并利用测序获得的863468个SNP标记对叶长(YC)、叶宽(YK)、长宽比(CKB)、叶身(YS)、叶色(YSZ)、叶尖(YD)、叶脉对数(YM)和叶缘(YY)8个叶型性状开展基于广义线性模型[GLM(Q)模型]的全基因组关联分析。【结果】在P<0.01条件下,其中6个性状共检测到38个显著SNP位点,分别是叶长(YC)关联到1个,长宽比(CKB)关联到24个,叶色泽(YSZ)关联到6个,叶尖(YD)关联到2个,叶脉对数关联到1个,叶缘关联到4个。38个显著SNP位点对关联性状的解释率为31.37%~60.70%。进一步在显著位点上下游50 kbp区域内进行候选基因挖掘,共得到8个候选基因:CSA011953(Sec11a)、CSA027293(CAD3)、CSA020561(GAE2)、CSA008530(AIM1)、CSA008531(MFP)、CSA008532(AIM1)、CSA008763(CYP72A154)、CSA029592(RABG3F)。对候选基因进行GO和KEGG注释,根据注释结果初步预测基因CSA027293(CAD3)与长宽比(CKB)、CSA008763(CYP72A154)与叶色(YSZ)紧密关联。【结论】38个茶树叶型性状显著关联的SNP位点发掘与2个候选基因预测可为茶树调控叶型基因精确定位、分子标记辅助育种提供基因资源和参考依据。【Objective】The study aimed to investigate SNP markers associated with leaf⁃type related traits in order to provide a reference for molecular marker⁃assisted breeding of tea plants.【Method】In the study,simplified genome sequencing(GBS)was conducted on 91 natural tea populations collected in Sichuan.A genome⁃wide association analysis(GWAS)based on the GLM(Q)model was performed using 863,468 SNP markers obtained from sequencing.Eight leaf⁃type related traits,including leaf length(YC),leaf width(YK),leaf length⁃width ratio(CKB),leaf area(YS),leaf color(YSZ),leaf tip(LD),leaf vein logarithm(YM),and leaf margin(YY),were investigated.【Result】A total of 38 significant SNP markers were detected at a P⁃value<0.01,and there were 1 SNP marker associated with YC,24 SNP markers associated with CKB,6 SNP markers associated with YSZ,2 SNP markers associated with YD,1 SNP marker associated with YM and 4 markers associated with YY.The 38 significant SNP markers could explain the association traits between 31.37%and 60.70%.Further candidate gene mining within the 50 kbp region upstream and downstream of the significant markers yielded.Additionally,8 candidate genes were further identified,CSA011953(Sec11a),CSA027293(CAD3),CSA020561(GAE2),CSA008530(AIM1),CSA008531(MFP),CSA008532(AIM1),CSA008763(CYP72A154),and CSA029592(RABG3F).Through GO and KEGG annotation,CSA027293(CAD3)and CSA008763(CYP72A154)could be closely associated with leaf length⁃width ratio(CKB)and leaf color(YSZ).【Conclusion】The 38 identification of SNP markers and two candidate genes associated with tea leaf shape traits provide valuable genetic resources and a reference basis for the precise localization of genes regulating tea tree leaf shape and for molecular marker⁃assisted breeding.

关 键 词：茶树 SNP标记 叶型 全基因组关联分析 

分 类 号：S571.1[农业科学—茶叶生产加工]