Han Wei, Qi Ming, Ye Kun, He Qiwei, Yekefenhazi Dinaer, Xu Dongdong, Han Fang, Li Wanbo
Key Laboratory of Healthy Mariculture for the East China Sea, Ministry of Agriculture and Rural Affairs, Jimei University, Xiamen, China.
Zhejiang Fisheries Technical Extension Center, Hangzhou, China.
Front Mol Biosci. 2024 Sep 25;11:1443522. doi: 10.3389/fmolb.2024.1443522. eCollection 2024.
The largemouth bass is a native species of North America that was first introduced to mainland China in the 1980s. In recent years, it has been extensively farmed in China due to its high meat quality and broad adaptability. In this study, we collected growth trait data from 1,066 largemouth bass individuals across two populations. We generated an average of approximately 7× sequencing coverage for these fish using Illumina sequencers. From the samples, we identified 2,695,687 SNPs and retained 1,809,116 SNPs for further analysis after filtering. To estimate the number of genome-wide effective SNPs, we performed LD pruning with PLINK software and identified 77,935 SNPs. Our GWAS revealed 15 SNPs associated with six growth traits. We identified a total of 24 genes related to growth, with three genes-, , and -directly associated with skeletal muscle development and growth, located near the leading SNP on chromosome 23. Other candidate genes are involved in the development of tissues and organs or other physiological processes. These findings provide a valuable set of SNPs and genes that could be useful for genetic breeding programs aimed at enhancing growth in largemouth bass.
大口黑鲈是北美洲的本土物种，于20世纪80年代首次引入中国大陆。近年来，由于其肉质优良且适应性广，在中国得到了广泛养殖。在本研究中，我们收集了两个大口黑鲈群体中1066个个体的生长性状数据。我们使用Illumina测序仪对这些鱼进行了平均约7倍的测序覆盖。从样本中，我们鉴定出2695687个单核苷酸多态性（SNP），经过筛选后保留了1809116个SNP用于进一步分析。为了估计全基因组有效SNP的数量，我们使用PLINK软件进行连锁不平衡（LD）修剪，鉴定出77935个SNP。我们的全基因组关联研究（GWAS）揭示了与六个生长性状相关的15个SNP。我们总共鉴定出24个与生长相关的基因，其中三个基因——、和——直接与骨骼肌发育和生长相关，位于23号染色体上领先SNP附近。其他候选基因参与组织和器官的发育或其他生理过程。这些发现提供了一组有价值的SNP和基因，可用于旨在提高大口黑鲈生长速度的遗传育种计划。
