College of Animal Science and Technology, Yunnan Agricultural University, Kunming, China.
College of Animal Science and Technology, China Agricultural University, Beijing, China.
Genet Sel Evol. 2024 Apr 2;56(1):24. doi: 10.1186/s12711-024-00893-8.
Gene flow is crucial for enhancing economic traits of livestock. In China, breeders have used hybridization strategies for decades to improve livestock performance. Here, we performed whole-genome sequencing of a native Chinese Lijiang pig (LJP) breed. By integrating previously published data, we explored the genetic structure and introgression of genetic components from commercial European pigs (EP) into the LJP, and examined the impact of this introgression on phenotypic traits.
Our analysis revealed significant introgression of EP breeds into the LJP and other domestic pig breeds in China. Using a haplotype-based approach, we quantified introgression levels and compared EP to LJP and other Chinese domestic pigs. The results show that EP introgression is widely prevalent in Chinese domestic pigs, although there are significant differences between breeds. We propose that LJP could potentially act as a mediator for the transmission of EP haplotypes. We also examined the correlation between EP introgression and the number of thoracic vertebrae in LJP and identified VRTN and STUM as candidate genes for this trait.
Our study provides evidence of introgressed European haplotypes in the LJP breed and describes the potential role of EP introgression on phenotypic changes of this indigenous breed.
基因流对于提高家畜的经济性状至关重要。在中国，几十年来，饲养员一直采用杂交策略来提高家畜的性能。在这里，我们对中国本土的丽江猪（LJP）品种进行了全基因组测序。通过整合之前发表的数据，我们探讨了来自商业欧洲猪（EP）的遗传成分在 LJP 中的遗传结构和渗入情况，并研究了这种渗入对表型特征的影响。
我们的分析揭示了 EP 品种对 LJP 和中国其他本地猪品种的显著渗入。我们使用基于单倍型的方法量化了渗入水平，并将 EP 与 LJP 和其他中国本地猪进行了比较。结果表明，EP 渗入在中国本地猪中广泛存在，但不同品种之间存在显著差异。我们提出 LJP 可能是 EP 单倍型传播的中介。我们还研究了 EP 渗入与 LJP 胸椎数量之间的相关性，并确定了 VRTN 和 STUM 是该性状的候选基因。
我们的研究提供了 LJP 品种中欧洲渗入单倍型的证据，并描述了 EP 渗入对这个本土品种表型变化的潜在作用。
