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Whole-genome resequencing reveals genetic diversity and selection signatures in five populations of Mandarin Fish (Siniperca chuatsi)

文献类型： 外文期刊

作者： Cui, Ran 1 ; Huang, Jie 1 ; Wang, Saisai 1 ; Zhang, Xin 1 ;

作者机构： 1.Beijing Acad Agr & Forestry Sci, Fisheries Sci Inst, Beijing 100097, Peoples R China

关键词： Mandarin Fish; Genome-wide SNPs; Genetic structure; Selection signatures; Fat trait

期刊名称：AQUACULTURE REPORTS （ 影响因子：3.7； 五年影响因子：4.0 ）

ISSN： 2352-5134

年卷期： 2024 年 39 卷

页码：

收录情况： SCI

摘要： Mandarin fish is an important freshwater economic fish in China, and the genome of mandarin fish population may have specific selection signatures after long-term selection, and studying these selection signatures is one of the important strategies for screening functional genes. In this study, the whole genome was resequenced from five mandarin fish populations (HLJ, HN, AH, FJ, and BJ), and a total of high-quality SNPs with 1659,318 single nucleotide polymorphisms were obtained, and the genetic differentiation index and nucleotide polymorphism ratio between populations were used to detect the selected genomic regions. The results showed that all individuals were divided into two branches, with the HLJ population forming an independent cluster, and the HN, AH, FJ, and BJ populations clustering together. Selection signal analysis on the HLJ mandarin fish population and other mandarin fish populations using the FST and pi HLJ/other methods. Finally, we identified 26 important candidate genes based on the enrichment pathways related to fat traits such as Glycerolipid metabolism, acylCoA oxidase activity, Wnt signaling pathway, and Notch signaling pathway, including notch3, pla2g12a and acox1. This study explores the genetic diversity and genetic structure of mandarin fish from a whole-genome perspective, identifies candidate genes related to fat traits, and provides references for the protection and utilization of mandarin fish genetic resources.

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