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园艺学报 ›› 2018, Vol. 45 ›› Issue (6): 1089-1100.doi: 10.16420/j.issn.0513-353x.2017-0829

• 研究论文 • 上一篇    下一篇

加工番茄Ve-1、I-2、Mi-1和Pto基因关联变异位点的挖掘

刘 磊,邓学斌,冯晶晶,王 静,孙晓荣,舒金帅,李君明*   

  1. 中国农业科学院蔬菜花卉研究所,农业部园艺作物生物学与种质创制重点实验室,北京 100081
  • 出版日期:2018-06-25 发布日期:2018-06-25
  • 基金资助:
    “十三五”国家重点研发计划项目(2016YFD0101700);国家自然科学基金项目(31171962);中国农业科学院科技创新工程项目(CAAS-ASTIP-IVFCAAS);农业部园艺作物生物学与种质创新重点实验室项目

Exploring Variant Sites Associated with Ve-1,I-2,Mi-1 and Pto Genes in Processing Tomato by Genome-wide Association Analysis

LIU Lei,DENG Xuebin,FENG Jingjing,WANG Jing,SUN Xiaorong,SHU Jinshuai,and LI Junming*   

  1. Institute of Vegetables and Flowers,Chinese Academy of Agricultural Sciences,The Key Laboratory of Biology and Genetic Improvement of Horticultural Crops,Ministry of Agriculture,Beijing 100081,China
  • Online:2018-06-25 Published:2018-06-25

摘要: 为了开发番茄抗黄萎病、枯萎病、根结线虫和细菌性斑点病基因的高通量分子标记,以189份加工番茄核心种质为试材进行低倍重测序(0.5×),群体结构和主成分分析结果均将材料分为2个大的亚群。利用混合线性模型(Mixed linear model,MLM)对抗病基因Ve-1、I-2、Mi-1和Pto的分子标记检测结果进行全基因组关联分析(Genome-wide association study,GWAS),获得了与抗病基因紧密连锁的变异位点,并获得了Ve-1、I-2、Mi-1和Pto基因内部的单核苷酸多态性位点(Single nucleotide polymorphisms,SNPs),提高了基因检测的准确性。其中与Ve-1关联度最高的位点位于基因内部,与I-2、Mi-1与Pto关联度最高的位点位于基因侧翼,可能与不同材料内等位基因变异及变异频率有关。利用该群体还可以进行加工番茄其他性状的挖掘;通过明确等位基因的变异与材料抗病基因的关系获得的关联位点可以用于通量SNP标记的开发,进行分子辅助番茄育种,提高番茄育种效率。

关键词: 番茄, 抗病基因, 全基因组关联分析, 变异位点

Abstract: To develop the high through molecular markers of Verticillium wilt,Fusarium wilt,Meloidogyne,and Bacterial speck,the core collection of 189 processing tomato accessions was analysed by genome-wide association study(GWAS). The 189 processing tomato accessions can be divided into two subgroups,by the Neighbor-joining tree and principal component analysis of the data of 0.5× re-sequence. The disease resistant genes,Ve-1,I-2,Mi-1 and Pto,were tested using molecular markers. The genome-wide association of the resistance genes were analysed by mixed linear model(MLM). The results were consistent with previous gene localization,and the inner SNPs of the resistance genes of Ve-1,I-2,Mi-1 and Pto were obtained,which can improve the accuracy of gene detection. The highest association SNP of Ve-1 was on the gene of Ve-1,and the highest loci associated with I-2,Mi-1 and Pto genes were located in the flanking region. The background and the frequency of variation of SNPs may affect the result of GWAS. The results indicated that the core collection of processing tomato can be used for exploring other traits. The SNPs obtained by GWAS can be used for the development of SNP markers,molecular markers assisted breeding and improvement of the breeding efficiency about tomato.

Key words: tomato, resistance gene, GWAS, SNP

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