{"title":"通过 RAD-seq 分析三个天竺葵种群的遗传多样性","authors":"Wenqiong Wu, Junqiang Qiu, Yue Lin, Xike Li, Wenjuan Li, Yuanliang Duan, Yuanshuai Fu","doi":"10.3389/fmolb.2024.1373754","DOIUrl":null,"url":null,"abstract":"To investigate the genetic diversity of <jats:italic>Triplophysa tenuis</jats:italic> in the Shule River Basin of Gansu province, three populations were sequenced via RAD-seq technology. Twenty-nine microsatellite (SSR) markers with polymorphisms were finally screened to access the genetic diversity among the populations, of which 15 had high polymorphisms. The quantity of the alleles detected in the three populations of <jats:italic>T. tenuis</jats:italic> varied from 2 to 24. The locus with the most alleles was SSRC1, which had 24 alleles. Among the 29 SSRs, the range of effective allele number, observed heterozygosity, expected heterozygosity, and polymorphic information content were 1.246–16.615, 0.222–1, 0.198–0.940, and 0.178–0.937, respectively. Most of the identified loci were in the Hardy–Weinberg equilibrium. Analysis of the population structure revealed that the Yumen and Changma populations shared the same origin, while the Qiaowan population was different from them. The developed SSR markers discovered in this study will contribute to the conservation research on <jats:italic>T. tenuis</jats:italic> and the conservation of the fishery resources of the Shule River, providing scientific guidance for the development and utilization of <jats:italic>T. tenuis</jats:italic> resources and environmental protection.","PeriodicalId":12465,"journal":{"name":"Frontiers in Molecular Biosciences","volume":null,"pages":null},"PeriodicalIF":3.9000,"publicationDate":"2024-07-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Analysis of genetic diversity among three Triplophysa tenuis populations by RAD-seq\",\"authors\":\"Wenqiong Wu, Junqiang Qiu, Yue Lin, Xike Li, Wenjuan Li, Yuanliang Duan, Yuanshuai Fu\",\"doi\":\"10.3389/fmolb.2024.1373754\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"To investigate the genetic diversity of <jats:italic>Triplophysa tenuis</jats:italic> in the Shule River Basin of Gansu province, three populations were sequenced via RAD-seq technology. Twenty-nine microsatellite (SSR) markers with polymorphisms were finally screened to access the genetic diversity among the populations, of which 15 had high polymorphisms. The quantity of the alleles detected in the three populations of <jats:italic>T. tenuis</jats:italic> varied from 2 to 24. The locus with the most alleles was SSRC1, which had 24 alleles. Among the 29 SSRs, the range of effective allele number, observed heterozygosity, expected heterozygosity, and polymorphic information content were 1.246–16.615, 0.222–1, 0.198–0.940, and 0.178–0.937, respectively. Most of the identified loci were in the Hardy–Weinberg equilibrium. Analysis of the population structure revealed that the Yumen and Changma populations shared the same origin, while the Qiaowan population was different from them. The developed SSR markers discovered in this study will contribute to the conservation research on <jats:italic>T. tenuis</jats:italic> and the conservation of the fishery resources of the Shule River, providing scientific guidance for the development and utilization of <jats:italic>T. tenuis</jats:italic> resources and environmental protection.\",\"PeriodicalId\":12465,\"journal\":{\"name\":\"Frontiers in Molecular Biosciences\",\"volume\":null,\"pages\":null},\"PeriodicalIF\":3.9000,\"publicationDate\":\"2024-07-25\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Frontiers in Molecular Biosciences\",\"FirstCategoryId\":\"99\",\"ListUrlMain\":\"https://doi.org/10.3389/fmolb.2024.1373754\",\"RegionNum\":3,\"RegionCategory\":\"生物学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q2\",\"JCRName\":\"BIOCHEMISTRY & MOLECULAR BIOLOGY\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Frontiers in Molecular Biosciences","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.3389/fmolb.2024.1373754","RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q2","JCRName":"BIOCHEMISTRY & MOLECULAR BIOLOGY","Score":null,"Total":0}
引用次数: 0
摘要
为研究甘肃省疏勒河流域三疣梭子蟹(Triplophysa tenuis)的遗传多样性,利用RAD-seq技术对三个种群进行了测序。最终筛选出29个具有多态性的微卫星(SSR)标记,其中15个标记具有较高的多态性。在 T. tenuis 的三个种群中检测到的等位基因数量从 2 个到 24 个不等。等位基因最多的位点是 SSRC1,有 24 个等位基因。在 29 个 SSR 中,有效等位基因数、观察杂合度、预期杂合度和多态信息含量的范围分别为 1.246-16.615、0.222-1、0.198-0.940 和 0.178-0.937。大部分已确定的位点处于哈代-温伯格平衡状态。种群结构分析表明,玉门种群与长马种群同源,而桥湾种群与之不同。本研究发现的SSR标记将有助于天牛的保护研究和疏勒河渔业资源的保护,为天牛资源的开发利用和环境保护提供科学指导。
Analysis of genetic diversity among three Triplophysa tenuis populations by RAD-seq
To investigate the genetic diversity of Triplophysa tenuis in the Shule River Basin of Gansu province, three populations were sequenced via RAD-seq technology. Twenty-nine microsatellite (SSR) markers with polymorphisms were finally screened to access the genetic diversity among the populations, of which 15 had high polymorphisms. The quantity of the alleles detected in the three populations of T. tenuis varied from 2 to 24. The locus with the most alleles was SSRC1, which had 24 alleles. Among the 29 SSRs, the range of effective allele number, observed heterozygosity, expected heterozygosity, and polymorphic information content were 1.246–16.615, 0.222–1, 0.198–0.940, and 0.178–0.937, respectively. Most of the identified loci were in the Hardy–Weinberg equilibrium. Analysis of the population structure revealed that the Yumen and Changma populations shared the same origin, while the Qiaowan population was different from them. The developed SSR markers discovered in this study will contribute to the conservation research on T. tenuis and the conservation of the fishery resources of the Shule River, providing scientific guidance for the development and utilization of T. tenuis resources and environmental protection.
期刊介绍:
Much of contemporary investigation in the life sciences is devoted to the molecular-scale understanding of the relationships between genes and the environment — in particular, dynamic alterations in the levels, modifications, and interactions of cellular effectors, including proteins. Frontiers in Molecular Biosciences offers an international publication platform for basic as well as applied research; we encourage contributions spanning both established and emerging areas of biology. To this end, the journal draws from empirical disciplines such as structural biology, enzymology, biochemistry, and biophysics, capitalizing as well on the technological advancements that have enabled metabolomics and proteomics measurements in massively parallel throughput, and the development of robust and innovative computational biology strategies. We also recognize influences from medicine and technology, welcoming studies in molecular genetics, molecular diagnostics and therapeutics, and nanotechnology.
Our ultimate objective is the comprehensive illustration of the molecular mechanisms regulating proteins, nucleic acids, carbohydrates, lipids, and small metabolites in organisms across all branches of life.
In addition to interesting new findings, techniques, and applications, Frontiers in Molecular Biosciences will consider new testable hypotheses to inspire different perspectives and stimulate scientific dialogue. The integration of in silico, in vitro, and in vivo approaches will benefit endeavors across all domains of the life sciences.