浙江农业学报 ›› 2024, Vol. 36 ›› Issue (5): 1055-1066.DOI: 10.3969/j.issn.1004-1524.20230663

• 园艺科学 • 上一篇    下一篇

萝卜SNP和InDel分子标记开发及与表型性状关联分析

李亚东1,2(), 罗小波3, 彭潇1,2, 杨光乾1,2, 金月月1,2, 祖贵东4, 田欢5, 张万萍1,2,*()   

  1. 1.贵州大学 农学院,贵州 贵阳 550025
    2.贵州大学 蔬菜研究院,贵州 贵阳 550025
    3.贵州省农业科学研究院,贵州 贵阳 550000
    4.威宁县农业农村局,贵州 威宁 553100
    5.贵州省现代种业集团有限公司,贵州 贵阳 550081
  • 收稿日期:2023-05-20 出版日期:2024-05-25 发布日期:2024-05-29
  • 作者简介:李亚东(1994—),男,贵州思南人,硕士研究生,研究方向为萝卜育种。E-mail:1475264389@qq.com
  • 通讯作者: * 张万萍,E-mail:1226190368@qq.com
  • 基金资助:
    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(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

Development of SNP and InDel markers in radish and their association with phenotypic characters

LI Yadong1,2(), LUO Xiaobo3, PENG Xiao1,2, YANG Guangqian1,2, JIN Yueyue1,2, ZU Guidong4, TIAN Huan5, ZHANG Wanping1,2,*()   

  1. 1. College of Agriculture, Guizhou University, Guiyang 550025, China
    2. Vegetable Research Institute, Guizhou University, Guiyang 550025, China
    3. Guizhou Academy of Agricultural Sciences, Guiyang 550000, China
    4. Bureau of Agriculture and Rural Affairs of Weining County, Weining 553100, Guizhou, China
    5. Guizhou Modern Seed Industry Group Co., Ltd., Guiyang 550081, China
  • Received:2023-05-20 Online:2024-05-25 Published:2024-05-29

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TASSEL5.0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%。

关键词: 萝卜, SNP, InDel, 聚类分析, 关联分析

Abstract:

In order to explore the molecular markers associated with significant phenotypic traits of radish, we identified 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 software 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 molecular marker sites (7 SNP markers and 10 InDel markers) were associated (P≤0.01), and the contribution rate was 7.24%-23.25%.

Key words: radish, SNP, InDel, cluster analysis, association analysis

中图分类号: