Centre for Advanced Studies in Animal Breeding and Genetics, Kerala Veterinary and Animal Sciences University, Mannuthy, Thrissur, 680 651, Kerala, India.
College of Veterinary and Animal Sciences, Kerala Veterinary and Animal Sciences University, Mannuthy, Thrissur, 680 651, Kerala, India.
Trop Anim Health Prod. 2024 Sep 28;56(8):296. doi: 10.1007/s11250-024-04136-2.
A comprehensive genomic scan of selective sweeps was conducted in autochthonous Attappady Black and improved dual-purpose Malabari goat breeds in south India. High-throughput single nucleotide polymorphism (SNP) marker data, obtained through Illumina goat SNP50 BeadChip genotyping of 48 goats (24 each of Attappady Black and Malabari goats), were utilized for the analysis. Selection signature analysis, employing hapFLK analysis based on haplotype differentiation, identified seven significant sweep regions (p < 0.005). Notably, one of these regions encompassed the genomic area housing the casein cluster and quantitative trait loci associated with milk production on chromosome 6. Gene ontology enrichment analysis of 166 putative selective genes associated with these sweep regions revealed 13 significantly over-represented Panther pathways (p ≤ 0.05), including the TGF-beta signalling pathway and GNRHR pathway. The selective sweeps detected in this study contributed significantly to the phenotypic divergence observed between Attappady Black and Malabari goats in south India.
在印度南部的本土阿塔帕迪黑山羊和改良的两用马拉巴尔山羊品种中，进行了全基因组选择清除扫描。利用高通量单核苷酸多态性（SNP）标记数据，通过 Illumina 山羊 SNP50 BeadChip 基因分型对 48 只羊（阿塔帕迪黑山羊和马拉巴尔山羊各 24 只）进行了分析。采用基于单倍型分化的 hapFLK 分析的选择信号分析，鉴定出 7 个显著的清除区域（p<0.005）。值得注意的是，其中一个区域包含了基因组区域，该区域包含了与第 6 号染色体上的产奶量相关的酪蛋白簇和数量性状位点。与这些清除区域相关的 166 个假定选择性基因的基因本体富集分析显示，有 13 个 Panther 途径显著过度表达（p≤0.05），包括 TGF-β 信号通路和 GNRHR 通路。本研究中检测到的选择清除对印度南部阿塔帕迪黑山羊和马拉巴尔山羊之间观察到的表型差异有重要贡献。
