嗜睡鳕鱼(Oxyeleotris lineolata) 48个SNP标记的全基因组重测序研究

IF 0.9 4区环境科学与生态学 Q4 BIODIVERSITY CONSERVATION

Conservation Genetics Resources Pub Date : 2023-12-02 DOI:10.1007/s12686-023-01334-2

Jiajia Fan, Dongmei Ma, Huaping Zhu, Minghui Lin, Huanhuan Su, Zaixuan Zhong

{"title":"嗜睡鳕鱼(Oxyeleotris lineolata) 48个SNP标记的全基因组重测序研究","authors":"Jiajia Fan, Dongmei Ma, Huaping Zhu, Minghui Lin, Huanhuan Su, Zaixuan Zhong","doi":"10.1007/s12686-023-01334-2","DOIUrl":null,"url":null,"abstract":"The sleepy cod Oxyeleotris lineolata is native to northern Australia. At present, there is little information on the genome information of the sleepy cod. In this study, a total of 48 novel single nucleotide polymorphism (SNP) markers were developed based on whole-genome resequencing. The analysis of the 48 SNP genotypes in 58 fish showed that the observed heterozygosity and expected heterozygosity ranged from 0.3030 to 0.6667 and 0.2133 to 0.8541, respectively. The minor allele frequency ranged from 0.1211 to 0.4899, and the polymorphism information content ranged from 0.1902 to 0.3749. Among these SNPs, seven SNPs were found to deviate from Hardy–Weinberg equilibrium significantly (P < 0.05). These SNP markers could find application in genetic linkage maps and association analysis with growth traits of sleepy cod.","PeriodicalId":10625,"journal":{"name":"Conservation Genetics Resources","volume":"68 1","pages":""},"PeriodicalIF":0.9000,"publicationDate":"2023-12-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Isolation and characterization of 48 SNP markers of sleepy cod, Oxyeleotris lineolata by whole-genome resequencing\",\"authors\":\"Jiajia Fan, Dongmei Ma, Huaping Zhu, Minghui Lin, Huanhuan Su, Zaixuan Zhong\",\"doi\":\"10.1007/s12686-023-01334-2\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"The sleepy cod Oxyeleotris lineolata is native to northern Australia. At present, there is little information on the genome information of the sleepy cod. In this study, a total of 48 novel single nucleotide polymorphism (SNP) markers were developed based on whole-genome resequencing. The analysis of the 48 SNP genotypes in 58 fish showed that the observed heterozygosity and expected heterozygosity ranged from 0.3030 to 0.6667 and 0.2133 to 0.8541, respectively. The minor allele frequency ranged from 0.1211 to 0.4899, and the polymorphism information content ranged from 0.1902 to 0.3749. Among these SNPs, seven SNPs were found to deviate from Hardy–Weinberg equilibrium significantly (P < 0.05). These SNP markers could find application in genetic linkage maps and association analysis with growth traits of sleepy cod.\",\"PeriodicalId\":10625,\"journal\":{\"name\":\"Conservation Genetics Resources\",\"volume\":\"68 1\",\"pages\":\"\"},\"PeriodicalIF\":0.9000,\"publicationDate\":\"2023-12-02\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Conservation Genetics Resources\",\"FirstCategoryId\":\"93\",\"ListUrlMain\":\"https://doi.org/10.1007/s12686-023-01334-2\",\"RegionNum\":4,\"RegionCategory\":\"环境科学与生态学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q4\",\"JCRName\":\"BIODIVERSITY CONSERVATION\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Conservation Genetics Resources","FirstCategoryId":"93","ListUrlMain":"https://doi.org/10.1007/s12686-023-01334-2","RegionNum":4,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q4","JCRName":"BIODIVERSITY CONSERVATION","Score":null,"Total":0}

引用次数: 0

摘要

睡意鳕鱼产于澳大利亚北部。目前，关于嗜睡鳕鱼的基因组信息知之甚少。本研究基于全基因组重测序，共开发了48个新的单核苷酸多态性(SNP)标记。对58条鱼的48个SNP基因型的分析表明，观察杂合度和期望杂合度分别在0.3030 ~ 0.6667和0.2133 ~ 0.8541之间。次要等位基因频率范围为0.1211 ~ 0.4899，多态性信息含量范围为0.1902 ~ 0.3749。其中7个snp明显偏离Hardy-Weinberg平衡(P < 0.05)。这些SNP标记可以应用于睡鱼的遗传连锁图谱和与生长性状的关联分析。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

查看原文本刊更多论文

Isolation and characterization of 48 SNP markers of sleepy cod, Oxyeleotris lineolata by whole-genome resequencing

The sleepy cod Oxyeleotris lineolata is native to northern Australia. At present, there is little information on the genome information of the sleepy cod. In this study, a total of 48 novel single nucleotide polymorphism (SNP) markers were developed based on whole-genome resequencing. The analysis of the 48 SNP genotypes in 58 fish showed that the observed heterozygosity and expected heterozygosity ranged from 0.3030 to 0.6667 and 0.2133 to 0.8541, respectively. The minor allele frequency ranged from 0.1211 to 0.4899, and the polymorphism information content ranged from 0.1902 to 0.3749. Among these SNPs, seven SNPs were found to deviate from Hardy–Weinberg equilibrium significantly (P < 0.05). These SNP markers could find application in genetic linkage maps and association analysis with growth traits of sleepy cod.

求助全文

通过发布文献求助，成功后即可免费获取论文全文。去求助

来源期刊

Conservation Genetics Resources BIODIVERSITY CONSERVATION-GENETICS & HEREDITY

CiteScore

2.90

自引率

9.10%

发文量

审稿时长

3-6 weeks

期刊介绍： Conservation Genetics Resources promotes the conservation of genetic diversity and advances the study of conservation genetics by providing rapid publication of technical papers and reviews on methodological innovations or improvements, computer programs, and genomic resources, as well as on the practical application of these resources towards the development of effective conservation policy and practice.