Detection and application of genome-wide variations in peach for association and genetic relationship analysis

文献类型： 外文期刊

第一作者： Guan, Liping

作者： Guan, Liping;Cao, Ke;Li, Yong;Guo, Jian;Wang, Lirong;Xu, Qiang

作者机构：

关键词： Genome-wide variations; Detection; Application; Peach

期刊名称：BMC GENETICS （ 影响因子：2.797； 五年影响因子：3.263 ）

ISSN： 1471-2156

年卷期： 2019 年 20 卷 1 期

页码：

收录情况： SCI

摘要： Background: Peach (Prunus persica L.) is a diploid species and model plant of the Rosaceae family. In the past decade, significant progress has been made in peach genetic research via DNA markers, but the number of these markers remains limited. Results: In this study, we performed a genome-wide DNA markers detection based on sequencing data of six distantly related peach accessions. A total of 650,693 similar to 1,053,547 single nucleotide polymorphisms (SNPs), 114, 227 similar to 178,968 small insertion/deletions (InDels), 8386 similar to 12,298 structure variants (SVs), 2111 similar to 2581 copy number variants (CNVs) and 229,357 similar to 346,940 simple sequence repeats (SSRs) were detected and annotated. To demonstrate the application of DNA markers, 944 SNPs were filtered for association study of fruit ripening time and 15 highly polymorphic SSRs were selected to analyze the genetic relationship among 221 accessions. Conclusions: The results showed that the use of high-throughput sequencing to develop DNA markers is fast and effective. Comprehensive identification of DNA markers, including SVs and SSRs, would be of benefit to genetic diversity evaluation, genetic mapping, and molecular breeding of peach.

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