中国水产科学2024，Vol.31Issue(3)：241-256,16.DOI:10.12264/JFSC2023-0347
基于RAD-seq的大口黑鲈选育群体快长SNP挖掘及其与生长性状的关联分析
Development of fast-growth SNP screening and association analysis with growth traits based on RAD-seq for largemouth bass(Micropterus salmoides)breeding populations
摘要
Abstract
Growth traits in largemouth bass(Micropterus salmoides)are crucial indicators of quality and yield.The development of growth single nucleotide polymorphism(SNP)markers and exploration of dominant genotypes and growth genes will enhance our understanding of the genetic mechanisms underlying growth and development.Moreover,this research will facilitate the selection and breeding of new populations with exceptional growth traits.Using restriction site-associated DNA sequencing(RAD-seq),we conducted SNP screening in the F0 generation of the northern subspecies of largemouth bass,focusing on extreme groups with very high body weights(top 1％)and very low body weights(bottom 1％).A general linear model(GLM)was applied to establish correlations between the SNP genotypes and four growth traits(body weight,body length,body height,and body thickness)in a cohort of 230 F0 individuals.Additionally,candidate genes associated with growth were predicted using gene annotation information,and the combined additive effects of the dominant genotypes were analyzed through examination of their aggregation.A total of 4196486 high-quality SNPs were identified across 23 chromosomes of the largemouth bass.Using a population-specific genotype frequency threshold of 0.7,we initially screened 100 potential SNP loci related to growth and identified 12 that were significantly associated with growth.Specifically,five SNPs were significantly associated with body weight,10 SNPs were significantly associated with body length,four SNPs were significantly associated with body height,and five SNPs were significantly associated with body thickness.Notably,the candidate growth genes fam174b,diaph2,kiaa15491b,and ppip5k1b were linked to specific SNP markers including SNP19140160,SNP24406191,SNP3355498,and SNP9244620,respectively.The enrichment of 6-10 dominant genotypes resulted in an average increase of 32.07％in body weight,9.63％in body length,9.96％in body height,and 10.58％in body thickness compared to the enrichment of 0-5 dominant genotypes,significantly improving the effect of genotype enrichment.The 12 fast-growth SNP markers and four candidate growth genes identified in this study could assist in the improvement of growth traits in largemouth bass.关键词
大口黑鲈/简化基因组测序/SNP/生长性状/优势基因型Key words
Micropterus salmoides/RAD-seq/SNP/growth traits/dominant genotypes分类
农业科技引用本文复制引用
华吉祥,姜冰洁,强俊,陶易凡,李岩,王庆春,陈文华,诸葛燕,张茂友,董亚伦,路思琪..基于RAD-seq的大口黑鲈选育群体快长SNP挖掘及其与生长性状的关联分析[J].中国水产科学,2024,31(3):241-256,16.基金项目
国家重点研发计划项目(2022YFE0139600) （2022YFE0139600）
科技创新2030-重大项目(2023ZD04065) （2023ZD04065）
苏州市科技计划项目(SNG2021009) （SNG2021009）
江苏省种业振兴"揭榜挂帅"项目(JBGS[2021]130) （JBGS[2021]130）
加州鲈产业重大技术协同推广计划项目(2022-ZYXT-07) （2022-ZYXT-07）
中国水产科学研究院淡水渔业研究中心基本科研业务费项目(2023JBFR02). （2023JBFR02）
