大黄鱼肌纤维性状的全基因组关联分析  

Genome-wide association study of muscle fiber related traits in large yellow croaker(Larimichthys crocea)

作　　者：何骞 吴怡迪 周志雄 郑文彬 周祉吟 郝帅峰 魏煜麒 濮菲 陈佳 徐鹏[1,2] HE Qian;WU Yidi;ZHOU Zhixiong;ZHENG Wenbin;ZHOU Zhiyin;HAO Shuaifeng;WEI Yuqi;PU Fei;CHEN Jia;XU Peng(Fujian Key Laboratory of Genetics and Breeding of Marine Organisms,College of Ocean and Earth Sciences,Xiamen University,Xiamen 361102,China;State Key Laboratory of Large Yellow Croaker Breeding,Ningde Fufa Fisheries Co.,Ltd.,Ningde 352130,China)

机构地区：[1]厦门大学海洋与地球学院,福建省海洋生物遗传育种重点实验室,福建厦门361102 [2]宁德市富发水产有限公司,大黄鱼育种国家重点实验室,福建宁德352130

出　　处：《水产学报》2022年第8期1313-1323,共11页Journal of Fisheries of China

基　　金：福建省科技重大专项(2020NZ08003);中央高校基本科研业务费专项(20720192010);厦门大学大学生创新创业训练计划项目(201910384050);福建省高校产学合作项目(2019N5001)。

摘　　要：为定位肉质相关遗传位点,解析大黄鱼肉质性状的遗传调控机制,并为养殖大黄鱼肉质选育提供基础,实验首次对大黄鱼肌纤维性状进行全基因组关联分析。首先采集一个大黄鱼养殖群体的背部肌肉样本,通过组织切片获得了483尾大黄鱼的肌纤维直径及253尾的肌纤维密度数据。随后用双消化限制性酶切位点相关的DNA测序(ddRAD-seq)法进行基因分型,将获得的25 520和25 309个高质量单核苷酸多态性(SNPs)位点用于全基因组关联分析(GWAS)。最终,在5条染色体上定位到了6个显著位点,并注释到了lpin2、adcyap1、btg1、tcp11l2、lifr、thbs4、gmeb1、slc2a1、myom1和myom2共10个候选基因。对上述候选基因的分析表明,大黄鱼的肉质与肌纤维组成、生长,以及能量代谢有关。本研究首次对大黄鱼肌纤维相关性状进行分析和基因组定位,发现2龄成熟大黄鱼的肌纤维性状间不存在性别差异。此外,lpin2、adcyap1和btg1等基因,以及能量代谢、肌纤维组成和生长等生物学过程可能在决定大黄鱼肌肉的物理特性中发挥作用。研究结果为大黄鱼分子标记辅助选育提供了重要的理论参考,并为后续开展针对养殖群体大黄鱼肉质性状的遗传改良提供了分子工具。Large yellow croaker(Larimichthys crocea) is an important mariculture fish in China.In recent years,the meat quality of cultured L.crocea has gradually declined due to limited culture conditions.Histological characteristics of muscle fibers are commonly used indexes in meat quality evaluation,especially muscle fiber diameter(FD) and density(Fρ).To identify related SNPs and investigate the potential genetic architecture of meat quality,thereby provide basis for meat quality related selection.We conducted a genome-wide association study(GWAS)on muscle fiber related traits of L.crocea,we collected the dorsal muscle of 500 cultured L.crocea and measured the FD and Fρ by using paraffin section and hematoxylin eosin(H.E) stain.The collected samples were genotyped by ddRAD-seq(double-digest restriction-site associated DNA sequencing),and a total of 25 520 and 25 309 high quality SNPs were obtained for FD and Fρ respectively.GWAS analysis identified 6 significantly associated SNPs on 5 chromosomes,and ten candidate genes including lpin2,adcyap1,btg1,lifr,thbs4,gmeb1,slc2a1,myom1,myom2 and tcp11l2 were detected.These genes are involved in biological processes including muscle fiber growth and development,as well as energy metabolism.This is the first study on genomic mapping and analysis of muscle fiber related traits in L.crocea.No gender difference was found in the muscle fiber related traits of two-year-old mature fish.In addition,genes such as lpin2,lifr and btg1 and biological processes including energy metabolism,muscle fiber growth and development may play a role in determining the physical characteristics of meat quality in L.crocea fiber.The results provide theoretical basis and potential molecular tools for subsequent genetic improvement of meat quality traits in cultured L.crocea.

关 键 词：大黄鱼 肌纤维直径 肌纤维密度 ddRAD-seq 全基因组关联分析 

分 类 号：Q785[生物学—分子生物学] S917.4[农业科学—水产科学]