Ros-Freixedes R, Pena R N, Richart C, Nadal J
Department of Animal Science, University of Lleida, Lleida, Spain.
Departament de Medicina i Cirurgia, Universitat Rovira i Virgili, Tarragona, Spain; Fundación Universitat Rovira i Virgili, Tarragona, Spain.
Genomics. 2023 Mar;115(2):110591. doi: 10.1016/j.ygeno.2023.110591. Epub 2023 Feb 26.
The genetic dynamics of wild populations with releases of farm-reared reinforcements are very complex. These releases can endanger wild populations through genetic swamping or by displacing them. We assessed the genomic differences between wild and farm-reared red-legged partridges (Alectoris rufa) and described differential selection signals between both populations. We sequenced the whole genome of 30 wild and 30 farm-reared partridges. Both partridges had similar nucleotide diversity (π). Farm-reared partridges had a more negative Tajima's D and more and longer regions of extended haplotype homozygosity than wild partridges. We observed higher inbreeding coefficients (F and F) in wild partridges. Selective sweeps (Rsb) were enriched with genes that contribute to the reproductive, skin and feather colouring, and behavioural differences between wild and farm-reared partridges. The analysis of genomic diversity should inform future decisions for the preservation of wild populations.
通过投放养殖的补充种群来研究野生种群的遗传动态是非常复杂的。这些投放可能会通过基因淹没或取代野生种群而使其受到威胁。我们评估了野生和养殖红腿石鸡（Alectoris rufa）之间的基因组差异，并描述了两个种群之间的差异选择信号。我们对30只野生和30只养殖石鸡的全基因组进行了测序。两种石鸡具有相似的核苷酸多样性（π）。养殖石鸡的Tajima's D值更负，且与野生石鸡相比，其纯合单倍型延伸区域更多、更长。我们观察到野生石鸡的近亲繁殖系数（F和F）更高。选择性清除（Rsb）富含导致野生和养殖石鸡在繁殖、皮肤和羽毛颜色以及行为方面存在差异的基因。基因组多样性分析应为未来野生种群的保护决策提供参考。
