National Engineering Research Center for Breeding Swine Industry, Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding, College of Animal Science, South China Agricultural University, Guangzhou 510642, China.
State Key Laboratory of Biocontrol, School of Life Sciences, Sun Yat-sen University, Guangzhou 510275, China.
Int J Mol Sci. 2024 May 23;25(11):5689. doi: 10.3390/ijms25115689.
The domestic pig () and its subfamilies have experienced long-term and extensive gene flow, particularly in Southeast Asia. Here, we analyzed 236 pigs, focusing on Yunnan indigenous, European commercial, East Asian, and Southeast Asian breeds, using the Pig Genomics Reference Panel (PGRP v1) of Pig Genotype-Tissue Expression (PigGTEx) to investigate gene flow and associated complex traits by integrating multiple database resources. In this study, we discovered evidence of admixtures from European pigs into the genome of Yunnan indigenous pigs. Additionally, we hypothesized that a potential conceptual gene flow route that may have contributed to the genetic composition of the Diannan small-ear pig is a gene exchange from the Vietnamese pig. Based on the most stringent gene introgression scan using the statistic, we identified three specific loci on chromosome 8, ranging from 51.65 to 52.45 Mb, which exhibited strong signatures of selection and harbored the , , and genes. These genes are associated with complex traits, such as fat mass, immunity, and litter weight, in pigs, as supported by multiple bio-functionalization databases. We utilized multiple databases to explore the potential dynamics of genetic exchange in Southeast Asian pig populations and elucidated specific gene functionalities.
家猪（）及其亚科经历了长期而广泛的基因流动，特别是在东南亚地区。在这里，我们分析了 236 头猪，重点关注云南本地猪、欧洲商业猪、东亚猪和东南亚猪，使用猪基因组组织表达参考面板（PGRP v1）（PigGTEx）整合多个数据库资源，研究基因流动及其相关复杂特征。在这项研究中，我们发现了欧洲猪的基因流入云南本地猪基因组的证据。此外，我们假设，一个可能有助于滇南小耳猪遗传组成的潜在概念性基因流动途径是越南猪的基因交换。基于使用 统计量的最严格基因渐渗扫描，我们在第 8 号染色体上鉴定出三个特定的位点，范围从 51.65 到 52.45Mb，这些位点表现出强烈的选择特征，并携带 、 和 基因。这些基因与猪的复杂特征有关，如脂肪量、免疫力和产仔数，这得到了多个生物功能数据库的支持。我们利用多个数据库探索了东南亚猪群遗传交换的潜在动态，并阐明了特定基因的功能。
