Darwin’s Fancy Revised: An Updated Understanding of the Genomic Constitution of Pigeon Breeds

作者：George Pacheco, Hein van Grouw, Michael D. Shapiro, M. Thomas P. Gilbert, Filipe Garrett Vieira · 发表于：Genome Biology and Evolution · 年份：2020 · DOI：10.1093/gbe/evaa027 · 被引用次数：26 · 研究领域：Genetic Mapping and Diversity in Plants and Animals、Animal Genetics and Reproduction、Genetic and phenotypic traits in livestock

Through its long history of artificial selection, the rock pigeon (Columba livia Gmelin 1789) was forged into a large number of domestic breeds. The incredible amount of phenotypic diversity exhibited in these breeds has long held the fascination of scholars, particularly those interested in biological inheritance and evolution. However, exploiting them as a model system is challenging, as unlike with many other domestic species, few reliable records exist about the origins of, and relationships between, each of the breeds. Therefore, in order to broaden our understanding of the complex evolutionary relationships among pigeon breeds, we generated genome-wide data by performing the genotyping-by-sequencing (GBS) method on close to 200 domestic individuals representing over 60 breeds. We analyzed these GBS data alongside previously published whole-genome sequencing data, and this combined analysis allowed us to conduct the most extensive phylogenetic analysis of the group, including two feral pigeons and one outgroup. We improve previous phylogenies, find considerable population structure across the different breeds, and identify unreported interbreed admixture events. Despite the reduced number of loci relative to whole-genome sequencing, we demonstrate that GBS data provide sufficient analytical power to investigate intertwined evolutionary relationships, such as those that are characteristic of animal domestic breeds. Thus, we argue that future studies should consider sequen...