Saif-Ur-Rehman Muhammad, Hassan Faiz-Ul, Reecy James, Deng Tingxian
Institute of Animal and Dairy Sciences, University of Agriculture, Faisalabad, Pakistan.
Department of Animal Science, Iowa State University, Ames, IA, USA.
Anim Biotechnol. 2023 Nov;34(4):1384-1396. doi: 10.1080/10495398.2022.2026369. Epub 2022 Jan 19.
The runs of homozygosity (ROH) were identified in 14 Pakistani cattle breeds ( = 105) by genotyping with the Illumina 50 K SNP BeadChip. These breeds were categorized into Dairy, Dual, and Draft breeds based on their utility and production performance. We identified a total of 10,936 ROHs which mainly consisted of a high number of shorter segments (1-4 Mb). Dairy group exhibited the highest level of inbreeding (F: 0.078 ± 0.028) while the lowest (F: 0.002 ± 0.008) was observed in Dual group. In 48 genomic regions identified with a high frequency of ROH, 207 genes were detected in the three breed groups. A substantially higher number of ROH islands detected in dairy breeds indicated the impact of the positive selection pressure over the years. Important candidate genes and QTL were detected in the ROH islands associated with economic traits like milk production, reproduction, meat, carcass, and health traits in dairy cattle.
通过使用Illumina 50K SNP基因芯片进行基因分型，在14个巴基斯坦牛品种（n = 105）中鉴定出纯合性片段（ROH）。根据这些品种的用途和生产性能，将它们分为奶牛、兼用和役用品种。我们共鉴定出10936个ROH，主要由大量较短片段（1-4 Mb）组成。奶牛组表现出最高水平的近亲繁殖（F：0.078±0.028），而兼用组最低（F：0.002±0.008）。在48个高频ROH鉴定的基因组区域中，在三个品种组中检测到207个基因。在奶牛品种中检测到的ROH岛数量显著更多，表明多年来正选择压力的影响。在与奶牛产奶、繁殖、肉、胴体和健康性状等经济性状相关的ROH岛中检测到重要的候选基因和QTL。
