Development and characterization of seventeen novel microsatellite markers in common hairfin anchovy (Setipinna tenuifilis) using third-generation sequencing technology

IF 0.7 4区农林科学 Q4 FISHERIES

Journal of Applied Ichthyology Pub Date : 2022-06-04 DOI:10.1111/jai.14335

Jiasheng Li, Bingjian Liu, Shiyi Chen, Ying Peng, Kun Zhang, Wenhua Huang, Xudong Liang, Haodi Shen, Liqin Liu, Zhenming Lü, Li Gong

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引用次数: 1

Abstract

Common hairfin anchovy (Setipinna tenuifilis) is an economically and ecologically important pelagic fish in China's seas. However, the resources of S. tenuifilis have been greatly declined as a result of overfishing. Therefore, a large number of polymorphic molecular markers will be of benefit to a further investigation of the existing genetic resources. In this study, a total of 2,529,301 microsatellite loci were detected in the S. tenuifilis genome using third-generation sequencing technology. Seventeen microsatellite markers were successfully developed from the randomly selected 100 dinucleotide motifs and genotyped by capillary electrophoresis. Sixteen markers were detected to be high polymorphic (PIC > 0.5) in S. tenuifilis. The number of alleles (Na) and effective number (Ne) of alleles ranged from 8 to 29 (mean 18.471) and ranged from 2.149 to 19.619 (mean 9.921), respectively. The average Ho was 0.642 and ranged from 0.383 to 0.900, and the average He was 0.855 and ranged from 0.535 to 0.949. The PCoA result showed no significant genetic heterogeneity based on individual genetic distance. However, the analysis of the STRUCTURE displayed a discontinuity between northern and southern populations. The result showed that these polymorphic microsatellite markers could be applied to study genetic diversity and population differentiation of S. tenuifilis, facilitating the management and conservation of this species.

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利用第三代测序技术开发和鉴定常见凤尾鱼(Setipinna tenuifilis) 17个新的微卫星标记

凤尾鱼(Setipinna tenuifilis)是中国海域具有重要经济和生态价值的中上层鱼类。然而，由于过度捕捞，黄颡鱼的资源已经大大减少。因此，大量的多态分子标记将有利于对现有遗传资源的进一步研究。本研究利用第三代测序技术，共检测到S. tenuifilis基因组中2,529,301个微卫星位点。从随机选取的100个二核苷酸基序中成功开发出17个微卫星标记，并通过毛细管电泳进行了基因分型。检测到16个高多态性标记(PIC > 0.5)。等位基因数(Na)和有效等位基因数(Ne)的变化范围分别为8 ~ 29(平均18.471)和2.149 ~ 19.619(平均9.921)。平均Ho为0.642，范围为0.383 ~ 0.900;平均He为0.855，范围为0.535 ~ 0.949。PCoA结果显示，基于个体遗传距离的遗传异质性不显著。然而，结构分析显示南北种群之间存在不连续性。结果表明，这些多态微卫星标记可用于研究柽柳的遗传多样性和群体分化，为柽柳的管理和保护提供依据。

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来源期刊

Journal of Applied Ichthyology 生物-海洋与淡水生物学

CiteScore

2.30

自引率

11.10%

发文量

审稿时长

3-8 weeks

期刊介绍： The Journal of Applied Ichthyology publishes articles of international repute on ichthyology, aquaculture, and marine fisheries; ichthyopathology and ichthyoimmunology; environmental toxicology using fishes as test organisms; basic research on fishery management; and aspects of integrated coastal zone management in relation to fisheries and aquaculture. Emphasis is placed on the application of scientific research findings, while special consideration is given to ichthyological problems occurring in developing countries. Article formats include original articles, review articles, short communications and technical reports.