绣球花型全基因组关联分析  

Genome-wide Association Study of Hydrangea macrophylla Inflorescence Type

作　　者：唐琪琦 李金帅 邱帅 张宪权[4] 高凯 秦俊 刘群录 TANG Qi-qi;LI Jin-shuai;QIU Shuai;ZHANG Xian-quan;GAO Kai;QIN Jun;LIU Qun-lu(School of Design,Shanghai Jiao Tong University,Shanghai 200240;Shanghai Investigation Design&Research Institute Co.,Ltd.,Shanghai 200335;Hangzhou Landscaping Incorporated Company,Hangzhou 310020;Shanghai Chen Shan Botanical Garden,Shanghai 201602)

机构地区：[1]上海交通大学设计学院,上海200240 [2]上海勘测设计研究院有限公司,上海200335 [3]杭州市园林绿化股份有限公司,杭州310020 [4]上海辰山植物园,上海201602

出　　处：《植物遗传资源学报》2023年第4期1174-1185,共12页Journal of Plant Genetic Resources

基　　金：上海市绿化和市容管理局科学技术攻关项目(G232406,G212410)。

摘　　要：花序类型是绣球(Hydrangea macrophylla)的重要观赏性状之一。为了定位控制花序类型的关键基因,对125株绣球单株进行了基因组重测序,获得了大量的单核苷酸多态性(SNP)。基于SNP分子标记和花序类型,分别采用Fastlmm和GEMMA软件的一般线性模型(GLM)和混合线性模型(MLM)进行全基因组关联分析(GWAS),以筛选出与花序类型密切相关的SNP。GWAS分析共获得了285个与花序表型显著相关的位点(-log_(10)(P)>9),表型变异解释率为11.80%~60.54%。从285个位点中筛选出12个SNP位点,采用测序法和竞争性等位基因特异性PCR法(KASP)对52个绣球品种及9个杂交后代群体进行了基因分型验证,其中SNP位点Hma1.2p1_0060F.1_796640、Hma1.2p1_0060F.1_1540773、Hma1.2p1_0653F.1_868484、Hma1.2p1_0669F.1_949341经检验与花序类型紧密关联,表明控制绣球花序的基因可能位于Hma1.2p1_0060F.1、Hma1.2p1_0653F.1和Hma1.2p1_0669F.1 Scaffold中。以285个SNP位点为中心寻找其上下游的基因,共标注到1287个基因。根据基因功能注释等信息预测了4个与绣球花序类型相关的编码转录因子的候选基因,分别为2个MYB,1个MADS和1个bHLH。该结果为后续的基因克隆和绣球分子标记辅助育种提供了依据。Inflorescence type is one of the important ornamental traits of Hydrangea macrophylla.To localize the key genes controlling inflorescence types,125 H.macrophylla individual plants were re-sequenced to obtain the single nucleotide polymorphisms(SNPs).Genome-wide association study(GWAS)was carried out using general linear model(GLM)and mixed linear model(MLM)of Fastlmm and GEMMA software,to identify the SNPs that strongly associated with inflorescence types.respectively.285 SNPs significantly associating with floral phenotypes were found(cutoff:−log_(10)(P)>9),which contributed to the phenotypic variation from 11.80% to 60.54%.Twelve SNPs from 285 loci were further genotyped by Sanger sequencing and kompetitive allele-specific PCR(KASP)in 52 hydrangea cultivars,and 9 hybrid populations.Four SNPs including Hma1.2p1_0060F.1_796640,Hma1.2p1_0060F.1_1540773,Hma1.2p1_0653F.1_868484 and Hma1.2p1_0669F.1_949341 were validated closely associating with inflorescence type,which indicated that the genes controlling hydrangea inflorescence type were probably allocated in three Scaffolds Hma1.2p1_0060F.1,Hma1.2p1_0653F.1 and Hma1.2p1_0669F.1.According to the DNA sequence surrounding the 285 SNPs associating with floral phenotypes,a total of 1287 genes were annotated.In these genes,four genes putatively encoding for transcription factors,including two MYBs,one MADS,and one bHLH,were predicted to be associated with hydrangea inflorescence type.These findings provided a foundation for future gene cloning and molecular marker-assisted breeding for hydrangea.

关 键 词：绣球 花序类型 全基因组关联分析 基因分型 

分 类 号：S685.99[农业科学—观赏园艺]