萝卜SNP和InDel分子标记开发及与表型性状关联分析
Development of SNP and InDel markers in radish and their association with phenotypic char-acters
李亚东 1罗小波 2彭潇 1杨光乾 1金月月 1祖贵东 3田欢 4张万萍1
作者信息
- 1. 贵州大学农学院,贵州贵阳 550025;贵州大学蔬菜研究院,贵州贵阳 550025
- 2. 贵州省农业科学研究院,贵州贵阳 550000
- 3. 威宁县农业农村局,贵州威宁 553100
- 4. 贵州省现代种业集团有限公司,贵州贵阳 550081
- 折叠
摘要
为了挖掘与萝卜表型性状显著相关的分子标记,对60份萝卜的14个表型数据进行鉴定,筛选出具有多态性的分子标记29个(其中12个SNP标记和17个InDel标记)进行遗传多样性分析,并利用TAS-SEL5.0软件的广义线性模型(general linear mode,GLM)对萝卜的14个表型数据进行关联分析.研究结果表明,29个分子标记的等位基因(Na)数范围在2～3个,平均为2.14个;主等位基因频率(MAF)为0.53-0.94个,平均为0.68个;每个标记的期望杂合度(He)范围为0.12-0.93,平均为0.63.每个位点的多态性信息含量(PIC)值范围在0.11-0.37,平均为0.32;在12个表型性状中关联到17个显著相关的分子标记位点(其中7个SNP标记和10个InDel标记)(P≤0.01),贡献率在7.24％-23.25％.
Abstract
In order to explore the molecular markers associated with significant phenotypic traits of radish,we identi-fied 14 phenotypic data of 60 radish samples,and screened out 29 molecular markers with polymorphism(12 SNP markers and 17 InDel markers)for genetic diversity analysis.The general linear mode(GLM)of TASSEL5.0 soft-ware was used for correlation analysis of 14 phenotypic data of radish.The results showed that the number of alleles(Na)of 29 molecular markers ranged from 2 to 3,with an average of 2.14.The frequency of major alleles(MAF)ranged from 0.53 to 0.94,with an average of 0.68.The expected heterozygosity(He)for each marker ranged from 0.12 to 0.93,with an average of 0.63.The polymorphism information content(PIC)values of each locus ranged from 0.11 to 0.37,with an average value of 0.32.Among the 12 phenotypic traits,17 significantly correlated mo-lecular marker sites(7 SNP markers and 10 InDel markers)were associated(P≤O.01),and the contribution rate was 7.24％-23.25％.
关键词
萝卜/SNP/InDel/聚类分析/关联分析Key words
radish/SNP/InDel/cluster analysis/association analysis引用本文复制引用
基金项目
国家自然科学基金(31960598)
贵州省高原特色蔬菜绿色生产科技创新人才团队项目(黔科合平台人才-CXTD[2022]003)
贵州省高原特色蔬菜产业技术体系建设项目()
出版年
2024
NETL
NSTL
万方数据