PDF(Pubmed)
Abstract：
The domestic pig (Sus scrofa) 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 fd 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 NAF1, NPY1R, and NPY5R 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.
摘要：
家猪(Susscrofa)及其亚家族经历了长期广泛的基因流,特别是在东南亚。这里,我们分析了236头猪,专注于云南原住民，欧洲商业,东亚,和东南亚品种，利用猪基因型组织表达（PigGTEx）的猪基因组学参考面板（PGRPv1）通过整合多个数据库资源来研究基因流和相关的复杂性状。在这项研究中,我们发现了来自欧洲猪的混合物进入云南本地猪基因组的证据。此外,我们假设，可能导致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fd统计量的最严格的基因渗入扫描，我们确定了8号染色体上的三个特定基因座，范围从51.65到52.45Mb，表现出强烈的选择特征，并拥有NAF1，NPY1R，和NPY5R基因。这些基因与复杂的性状有关,比如脂肪量，豁免权,和垃圾重量，在猪身上,由多个生物功能化数据库支持。我们利用多个数据库来探索东南亚猪种群遗传交换的潜在动态，并阐明了特定的基因功能。
