Faculty of Animal Science and Technology, Yunnan Agricultural University, Kunming, Yunnan, 650201, China.
Faculty of Animal Science, Xichang University, Xichang, Sichuan, 615000, China.
BMC Genomics. 2024 Jun 10;25(1):582. doi: 10.1186/s12864-024-10484-y.
Carcass traits are essential economic traits in the commercial pig industry. However, the genetic mechanism of carcass traits is still unclear. In this study, we performed a genome-wide association study (GWAS) based on the specific-locus amplified fragment sequencing (SLAF-seq) to study seven carcass traits on 223 four-way intercross pigs, including dressing percentage (DP), number of ribs (RIB), skin thinkness (ST), carcass straight length (CSL), carcass diagonal length (CDL), loin eye width (LEW), and loin eye thickness (LET).
A total of 227,921 high-quality single nucleotide polymorphisms (SNPs) were detected to perform GWAS. A total of 30 SNPs were identified for seven carcass traits using the mixed linear model (MLM) (p < 1.0 × 10), of which 9 SNPs were located in previously reported quantitative trait loci (QTL) regions. The phenotypic variation explained (PVE) by the significant SNPs was from 2.43 to 16.32%. Furthermore, 11 candidate genes (LYPLAL1, EPC1, MATN2, ZFAT, ZBTB10, ZNF704, INHBA, SMYD3, PAK1, SPTBN2, and ACTN3) were found for carcass traits in pigs.
The GWAS results will improve our understanding of the genetic basis of carcass traits. We hypothesized that the candidate genes associated with these discovered SNPs would offer a biological basis for enhancing the carcass quality of pigs in swine breeding.
胴体性状是商品猪产业的重要经济性状。然而，胴体性状的遗传机制尚不清楚。本研究基于特异区域扩增片段测序（SLAF-seq），对 223 头四元杂交猪的 7 个胴体性状（DP、RIB、ST、CSL、CDL、LEW 和 LET）进行了全基因组关联研究（GWAS）。
共检测到 227921 个高质量单核苷酸多态性（SNP）进行 GWAS。采用混合线性模型（MLM）鉴定到 7 个胴体性状的 30 个 SNP（p < 1.0 × 10），其中 9 个 SNP 位于先前报道的数量性状基因座（QTL）区域。显著 SNP 解释的表型变异（PVE）为 2.43%至 16.32%。此外，在猪的胴体性状中发现了 11 个候选基因（LYPLAL1、EPC1、MATN2、ZFAT、ZBTB10、ZNF704、INHBA、SMYD3、PAK1、SPTBN2 和 ACTN3）。
GWAS 结果将提高我们对胴体性状遗传基础的认识。我们假设与这些发现的 SNP 相关的候选基因将为提高猪的胴体质量提供生物学基础，从而在猪的选育中发挥作用。
