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Whole-genome re-sequencing reveals genome-wide variations between the peach variety Green No. 9 and its bud mutant Daifei

文献类型： 外文期刊

作者： Li, Guixiang 1 ; Li, Miao 1 ; Liu, Wei 1 ; Dong, Xiaomin 1 ; Gao, Xiaolan 1 ; Zhang, Anning 1 ;

作者机构： 1.Shandong Inst Pomol, Longtan Rd, Tai An, Shandong, Peoples R China

关键词： peach; genome; re-sequence; mutation; DNA polymorphism; metabolic pathway

期刊名称：CANADIAN JOURNAL OF PLANT SCIENCE （ 影响因子：1.018； 五年影响因子：1.242 ）

ISSN： 0008-4220

年卷期： 2022 年 102 卷 1 期

页码：

收录情况： SCI

摘要： Whole-genome sequencing technologies provide opportunities to further understand genetic variation among different varieties. Some related genes that are useful for the breeding process could be identified by sequencing technologies. In this study, two peach varieties, Green No. 9 (LH) and its bud mutant Daifei (DT), were analyzed with whole-genome re-sequencing. Approximately 109 million total reads were generated, which covered similar to 89% of the peach reference genome. A total of 1 143 757 single nucleotide polymorphisms (SNPs), 169 827 insertion-deletion mutations (InDels), 17 132 structural variations (SVs) and 5 040 copy number variations (CNVs) were detected in Green No. 9 and Daifei. Variant genes were classified by Gene Ontology (GO) and the Kyoto Encyclopedia of Genes and Genomes (KEGG) metabolic pathway database. Detected genes such as LOC18768059 (carbohydrate metabolism) and LOC18785045 (anthocyanin biosynthesis), were good candidate genes for exploring the phenotypic variations between Green No. 9 and Daifei. Green No. 9 and its bud mutant Daifei showed obvious differences in phenotypes and variant genetic loci. The detected genomic variations will contribute to explorations of important functional genes and to understanding the genetic basis of peach bud mutations.

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