葡萄果粒形状简化基因组关联分析  

Genome-wide Association Mapping of Berry Shape Traits via the Reduced Representation Sequencing in Grape

作　　者：张恒 刘众杰 樊秀彩[2] 张川[1] 崔力文[1] 刘崇怀[2] 房经贵[1] 

机构地区：[1]南京农业大学园艺学院,南京210095 [2]中国农业科学院郑州果树研究所,郑州450009

出　　处：《园艺学报》2017年第10期1959-1968,共10页Acta Horticulturae Sinica

基　　金：江苏省科技支撑计划(农业)项目(BE2013431);国家自然科学基金项目(31672131);国家现代农业产业技术体系建设专项资金项目(CARS-30);农业部作物种质资源保护项目(NB2012-2130135-34)

摘　　要：为了寻找控制葡萄果粒形状的基因位点,本研究中对304个葡萄种质的果形性状了进行简化基因组关联分析。对葡萄种质材料的基因组DNA进行测序,平均测序深度为8.13×,共开发466 618个SLAF标签,其中多态性SLAF标签有392 374个。比对测序分析获得了4 241 729个SNP标记,进一步根据完整度大于0.8以及次要基因型频率大于0.05的标准进行过滤,共得到481 192个SNP。本次检测到的控制葡萄果粒形状的相关位点为首次报道,除基于一般线性模型的SNP rs26137624外,其余检测表型遗传变异贡献率均大于11%。基于一般线性模型和混合线性模型分别关联到7个和3个显著性SNP标记,且均位于2号染色体上。通过筛选每个显著性SNP标记上下游区域,对关联区域进行功能基因挖掘,共得到10个有预测功能注释的基因和7个未知功能的基因。Three hundred and four grape germplasms were selected to do the reduced representation sequencing for genome-wide association mapping to detect the genetic loci controlling berry shape.The DNA samples isolated from the grape germplasms were sequenced with a 8.13-fold sequencing depth for each sample,and a total of 466 618 high quality SLAF（specific locus amplified fragment sequencing）labels were acquired,among which 392 374 were polymorphicones.Alignment analysis to the polymorphic SLAF labels identified 4 241 729 SNP,from which 481 192 SNP were obtained with the screening based on a proportion of genotyped efficiency over 0.8 and minor allele frequencies higher than 0.05.In this study,the loci controlling grape berry shape were the first reported,and the devotions of the gene variances for berry shape were higher than 11% except of the SNP rs26137624 based on GLM.Further analysis using GLM and MLM model detected 7 and 3 SNPs,respectively,and all these 10 SNPs located on chromosome 2.Through filtering the associated upstream and downstream areas around each significant SNP,and detecting these related regions for functional genes,10 genes with predicted functional annotations and 7 without named protein product predicted were found.

关 键 词：葡萄 果粒形状 SLAF 基因组关联分析 

分 类 号：S663.1[农业科学—果树学]