A genome-wide association study identified candidate regions and genes for commercial traits in a Landrace population.

IF 2.8 3区生物学 Q2 GENETICS & HEREDITY

Frontiers in Genetics Pub Date : 2025-01-06 eCollection Date: 2024-01-01 DOI:10.3389/fgene.2024.1505197

Guojian Ma, Xihong Tan, Ying Yan, Tianyang Zhang, Jianhua Wang, Xiaoling Chen, Jingya Xu

{"title":"A genome-wide association study identified candidate regions and genes for commercial traits in a Landrace population.","authors":"Guojian Ma, Xihong Tan, Ying Yan, Tianyang Zhang, Jianhua Wang, Xiaoling Chen, Jingya Xu","doi":"10.3389/fgene.2024.1505197","DOIUrl":null,"url":null,"abstract":"Backfat thickness (BFT) and feed conversion ratio (FCR) are important commercial traits in the pig industry. With the increasing demand for human health and meat production, identifying functional genomic regions and genes associated with these commercial traits is critical for enhancing production efficiency. In this research, we conducted a genome-wide association study (GWAS) on a Landrace population comprising 4,295 individuals with chip data for BFT and FCR. Our analysis revealed a total of 118 genome-wide significant signals located on chromosomes SSC1, SSC2, SSC7, SSC12, and SSC13, respectively. Furthermore, we identified 10 potential regions associated with the two traits and annotated the genes within these regions. In addition, enrichment analysis was also performed. Notably, candidate genes such as SHANK2, KCNQ1, and ABL1 were found to be associated with BFT, whereas NAP1L4, LSP1, and PPFIA1 genes were related to the FCR. Our findings provide valuable insights into the genetic architecture of these two traits and offer guidance for future pig breeding efforts.","PeriodicalId":12750,"journal":{"name":"Frontiers in Genetics","volume":"15 ","pages":"1505197"},"PeriodicalIF":2.8000,"publicationDate":"2025-01-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11743953/pdf/","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Frontiers in Genetics","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.3389/fgene.2024.1505197","RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"2024/1/1 0:00:00","PubModel":"eCollection","JCR":"Q2","JCRName":"GENETICS & HEREDITY","Score":null,"Total":0}

引用次数: 0

Abstract

Backfat thickness (BFT) and feed conversion ratio (FCR) are important commercial traits in the pig industry. With the increasing demand for human health and meat production, identifying functional genomic regions and genes associated with these commercial traits is critical for enhancing production efficiency. In this research, we conducted a genome-wide association study (GWAS) on a Landrace population comprising 4,295 individuals with chip data for BFT and FCR. Our analysis revealed a total of 118 genome-wide significant signals located on chromosomes SSC1, SSC2, SSC7, SSC12, and SSC13, respectively. Furthermore, we identified 10 potential regions associated with the two traits and annotated the genes within these regions. In addition, enrichment analysis was also performed. Notably, candidate genes such as SHANK2, KCNQ1, and ABL1 were found to be associated with BFT, whereas NAP1L4, LSP1, and PPFIA1 genes were related to the FCR. Our findings provide valuable insights into the genetic architecture of these two traits and offer guidance for future pig breeding efforts.

查看原文本刊更多论文

一项全基因组关联研究确定了地方种族群体中商业性状的候选区域和基因。

背膘厚（BFT）和饲料系数（FCR）是养猪业的重要商业性状。随着人类健康和肉类生产需求的增加，识别与这些商业性状相关的功能基因组区域和基因对于提高生产效率至关重要。在这项研究中，我们对一个包含4295名长白人种的全基因组关联研究（GWAS）进行了BFT和FCR的芯片数据。我们的分析发现118个全基因组显著信号分别位于SSC1、SSC2、SSC7、SSC12和SSC13染色体上。此外，我们确定了10个与这两个性状相关的潜在区域，并对这些区域内的基因进行了注释。此外，还进行了富集分析。值得注意的是，候选基因如SHANK2、KCNQ1和ABL1被发现与BFT相关，而NAP1L4、LSP1和PPFIA1基因与FCR相关。我们的发现为这两种性状的遗传结构提供了有价值的见解，并为未来的猪育种工作提供了指导。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

求助全文

约1分钟内获得全文求助全文

来源期刊

Frontiers in Genetics Biochemistry, Genetics and Molecular Biology-Molecular Medicine

CiteScore

5.50

自引率

8.10%

发文量

3491

审稿时长

14 weeks

期刊介绍： Frontiers in Genetics publishes rigorously peer-reviewed research on genes and genomes relating to all the domains of life, from humans to plants to livestock and other model organisms. Led by an outstanding Editorial Board of the world’s leading experts, this multidisciplinary, open-access journal is at the forefront of communicating cutting-edge research to researchers, academics, clinicians, policy makers and the public. The study of inheritance and the impact of the genome on various biological processes is well documented. However, the majority of discoveries are still to come. A new era is seeing major developments in the function and variability of the genome, the use of genetic and genomic tools and the analysis of the genetic basis of various biological phenomena.