{"title":"Development of SNP parentage assignment techniques in the yellowfin seabream Acanthopagrus latus","authors":"Hongbo Zhao, Liangmin Huang, Jing Zhang, Songyuan You, Qingmin Zeng, Xiande Liu","doi":"10.1007/s13131-023-2221-7","DOIUrl":null,"url":null,"abstract":"<p><i>Acanthopagrus latus</i> is an essential aquaculture species on the south coast of China. However, there is a lack of systematic breeding of <i>A. latus</i>, which considerably limits the sustainable development of <i>A. latus</i>. As a result, genetic improvements are urgently needed to breed new strains of <i>A. latus</i> with rapid growth and strong resistance to disease. During selective breeding, it is necessary to estimate the genetic parameters of the target trait, which in turn depends on an accurate disentangled pedigree for the selective population. Therefore, it is necessary to establish the parentage assignment technique for <i>A. latus</i>. In this study, 95 individuals selected from their parents and their 14 families were used as experimental material. SNPs were developed by genome re-sequencing, and highly polymorphic SNPs were screened on the basis of optimized filtering parameters. A total of 14 392 738 SNPs were discovered and 205 SNPs were selected for parentage assignment using the CERVUS software. In the model where the gender of the parents is known, the assignment success rate is 98.61% for the male parent, 97.22% for the female parent, and 95.83% for the parent pair. In the model where the gender of the parents is unknown, the assignment success rate is 100% for a single parent and 90.28% for the parent pair. The results of this study were expected to serve as a reference for the breeding of new varieties of <i>A.latus</i>.</p>","PeriodicalId":6922,"journal":{"name":"Acta Oceanologica Sinica","volume":"270 1","pages":""},"PeriodicalIF":1.4000,"publicationDate":"2024-04-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Acta Oceanologica Sinica","FirstCategoryId":"89","ListUrlMain":"https://doi.org/10.1007/s13131-023-2221-7","RegionNum":3,"RegionCategory":"地球科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q3","JCRName":"OCEANOGRAPHY","Score":null,"Total":0}
引用次数: 0
Abstract
Acanthopagrus latus is an essential aquaculture species on the south coast of China. However, there is a lack of systematic breeding of A. latus, which considerably limits the sustainable development of A. latus. As a result, genetic improvements are urgently needed to breed new strains of A. latus with rapid growth and strong resistance to disease. During selective breeding, it is necessary to estimate the genetic parameters of the target trait, which in turn depends on an accurate disentangled pedigree for the selective population. Therefore, it is necessary to establish the parentage assignment technique for A. latus. In this study, 95 individuals selected from their parents and their 14 families were used as experimental material. SNPs were developed by genome re-sequencing, and highly polymorphic SNPs were screened on the basis of optimized filtering parameters. A total of 14 392 738 SNPs were discovered and 205 SNPs were selected for parentage assignment using the CERVUS software. In the model where the gender of the parents is known, the assignment success rate is 98.61% for the male parent, 97.22% for the female parent, and 95.83% for the parent pair. In the model where the gender of the parents is unknown, the assignment success rate is 100% for a single parent and 90.28% for the parent pair. The results of this study were expected to serve as a reference for the breeding of new varieties of A.latus.
期刊介绍:
Founded in 1982, Acta Oceanologica Sinica is the official bi-monthly journal of the Chinese Society of Oceanography. It seeks to provide a forum for research papers in the field of oceanography from all over the world. In working to advance scholarly communication it has made the fast publication of high-quality research papers within this field its primary goal.
The journal encourages submissions from all branches of oceanography, including marine physics, marine chemistry, marine geology, marine biology, marine hydrology, marine meteorology, ocean engineering, marine remote sensing and marine environment sciences.
It publishes original research papers, review articles as well as research notes covering the whole spectrum of oceanography. Special issues emanating from related conferences and meetings are also considered. All papers are subject to peer review and are published online at SpringerLink.