Jiasheng Li, Bingjian Liu, Shiyi Chen, Ying Peng, Kun Zhang, Wenhua Huang, Xudong Liang, Haodi Shen, Liqin Liu, Zhenming Lü, Li Gong
{"title":"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","authors":"Jiasheng Li, Bingjian Liu, Shiyi Chen, Ying Peng, Kun Zhang, Wenhua Huang, Xudong Liang, Haodi Shen, Liqin Liu, Zhenming Lü, Li Gong","doi":"10.1111/jai.14335","DOIUrl":null,"url":null,"abstract":"<p>Common hairfin anchovy (<i>Setipinna tenuifilis</i>) is an economically and ecologically important pelagic fish in China's seas. However, the resources of <i>S. tenuifilis</i> 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 <i>S. tenuifilis</i> 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 (<i>PIC</i> > 0.5) in <i>S. tenuifilis</i>. The number of alleles (<i>Na</i>) and effective number (<i>Ne</i>) of alleles ranged from 8 to 29 (mean 18.471) and ranged from 2.149 to 19.619 (mean 9.921), respectively. The average <i>Ho</i> was 0.642 and ranged from 0.383 to 0.900, and the average <i>He</i> 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 <i>S. tenuifilis</i>, facilitating the management and conservation of this species.</p>","PeriodicalId":14894,"journal":{"name":"Journal of Applied Ichthyology","volume":null,"pages":null},"PeriodicalIF":0.7000,"publicationDate":"2022-06-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"1","resultStr":"{\"title\":\"Development and characterization of seventeen novel microsatellite markers in common hairfin anchovy (Setipinna tenuifilis) using third-generation sequencing technology\",\"authors\":\"Jiasheng Li, Bingjian Liu, Shiyi Chen, Ying Peng, Kun Zhang, Wenhua Huang, Xudong Liang, Haodi Shen, Liqin Liu, Zhenming Lü, Li Gong\",\"doi\":\"10.1111/jai.14335\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p>Common hairfin anchovy (<i>Setipinna tenuifilis</i>) is an economically and ecologically important pelagic fish in China's seas. However, the resources of <i>S. tenuifilis</i> 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 <i>S. tenuifilis</i> 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 (<i>PIC</i> > 0.5) in <i>S. tenuifilis</i>. The number of alleles (<i>Na</i>) and effective number (<i>Ne</i>) of alleles ranged from 8 to 29 (mean 18.471) and ranged from 2.149 to 19.619 (mean 9.921), respectively. The average <i>Ho</i> was 0.642 and ranged from 0.383 to 0.900, and the average <i>He</i> 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 <i>S. tenuifilis</i>, facilitating the management and conservation of this species.</p>\",\"PeriodicalId\":14894,\"journal\":{\"name\":\"Journal of Applied Ichthyology\",\"volume\":null,\"pages\":null},\"PeriodicalIF\":0.7000,\"publicationDate\":\"2022-06-04\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"1\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Journal of Applied Ichthyology\",\"FirstCategoryId\":\"97\",\"ListUrlMain\":\"https://onlinelibrary.wiley.com/doi/10.1111/jai.14335\",\"RegionNum\":4,\"RegionCategory\":\"农林科学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q4\",\"JCRName\":\"FISHERIES\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Applied Ichthyology","FirstCategoryId":"97","ListUrlMain":"https://onlinelibrary.wiley.com/doi/10.1111/jai.14335","RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q4","JCRName":"FISHERIES","Score":null,"Total":0}
Development and characterization of seventeen novel microsatellite markers in common hairfin anchovy (Setipinna tenuifilis) using third-generation sequencing technology
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.
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.