Department of Vegetable Crops, Korea National College of Agriculture and Fisheries, Jeonju, 54874, Republic of Korea.
Vegetable Research Division, National Institute of Horticultural and Herbal Science, Rural Development Administration, Jeonju, 55365, Republic of Korea.
Sci Rep. 2018 Mar 26;8(1):5188. doi: 10.1038/s41598-018-23279-5.
The present study deals with genome wide identification of single-nucleotide polymorphism (SNP) markers related to powdery mildew (PM) resistance in two pepper varieties. Capsicum baccatum (PRH1- a PM resistant line) and Capsicum annuum (Saengryeg- a PM susceptible line), were resequenced to develop SNP markers. A total of 6,213,009 and 6,840,889 SNPs for PRH1 and Saengryeg respectively have been discovered. Among the SNPs, majority were classified as homozygous type SNPs, particularly in the resistant line. Moreover, the SNPs were differentially distributed among the chromosomes in both the resistant and susceptible lines. In total, 4,887,031 polymorphic SNP loci were identified between the two lines and 306,871 high-resolution melting (HRM) marker primer sets were designed. In order to understand the SNPs associated with the vital genes involved in diseases resistance and stress associated processes, chromosome-wise gene ontology analysis was performed. The results revealed the occurrence that SNPs related to diseases resistance genes were predominantly distributed in chromosome 4. In addition, 6281 SNPs associated with 46 resistance genes were identified. Among the lines, PRH1 consisted of maximum number of polymorphic SNPs related to NBS-LRR genes. The SNP markers were validated using HRM assay in 45 F populations and correlated with the phenotypic disease index.
本研究旨在鉴定与两种辣椒品种（辣椒（PRH1-抗白粉病）和辣椒（Saengryeg-感白粉病））白粉病抗性相关的单核苷酸多态性（SNP）标记。对 PRH1 和 Saengryeg 进行重测序以开发 SNP 标记。分别发现了 6213009 个和 6840889 个 PRH1 和 Saengryeg 的 SNP。在这些 SNP 中，大多数被归类为纯合 SNP，特别是在抗性系中。此外，SNP 在两种系中的染色体上的分布存在差异。在这两个系之间总共鉴定出 4887031 个多态性 SNP 位点，并设计了 306871 个高分辨率熔解（HRM）标记引物对。为了了解与抗病和应激相关过程中重要基因相关的 SNP，对染色体进行了基因本体论分析。结果表明，与抗病基因相关的 SNP 主要分布在第 4 号染色体上。此外，鉴定出 6281 个与 46 个抗性基因相关的 SNP。在这些系中，PRH1 包含与 NBS-LRR 基因相关的最多数量的多态性 SNP。使用 HRM 分析在 45 个 F 群体中验证了 SNP 标记，并与表型疾病指数相关。
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