Abstract
Convergent evolution provides powerful opportunities to investigate the genetic basis of complex traits. The Tibetan antelope (Pantholops hodgsonii) and Siberian ibex (Capra sibirica) belong to different subfamilies in Bovidae, but both have evolved similar superfine cashmere characteristics to meet the cold temperature in plateau environments. The cashmere traits of cashmere goats underwent strong artificial selection, and some traces of domestication also remained in the genome. Hence, we investigated the convergent genomic signatures of cashmere traits between natural and artificial selection. We compared the patterns of convergent molecular evolution between Tibetan antelope and Siberian ibex by testing positively selected genes, rapidly evolving genes and convergent amino acid substitutions. In addition, we analyzed the selected genomic features of cashmere goats under artificial selection using whole-genome resequencing data, and skin transcriptome data of cashmere goats were also used to focus on the genes involved in regulating cashmere traits. We found that molecular convergent events were very rare, but natural and artificial selection genes were convergent enriched in similar functional pathways (e.g., ECM-receptor interaction, focal adhesion, PI3K-Akt signaling pathway) in a variety of gene sets. Type IV collagen family genes (COL4A2, COL4A4, COL4A5, COL6A5, COL6A6) and integrin family genes (ITGA2, ITGA4, ITGA9, ITGB8) may be important candidate genes for cashmere formation and development. Our results provide a comprehensive approach and perspective for exploring cashmere traits and offer a valuable reference for subsequent in-depth research on the molecular mechanisms regulating cashmere development and fineness.
Funder
National Natural Science Foundation of China
National Key Research and Development Program of China
Postdoctoral Innovative Talents Support Program of China
Subject
Inorganic Chemistry,Organic Chemistry,Physical and Theoretical Chemistry,Computer Science Applications,Spectroscopy,Molecular Biology,General Medicine,Catalysis
Reference67 articles.
1. Genome-Wide Convergence during Evolution of Mangroves from Woody Plants;Xu;Mol. Biol. Evol.,2017
2. Convergent evolution in the genomics era: New insights and directions;Sackton;Philos. Trans. R. Soc. B.,2019
3. Causes and evolutionary significance of genetic convergence;Christin;Trends Genet. TIG,2010
4. Comparative genomics provides insights into the aquatic adaptations of mammals;Yuan;Proc. Natl. Acad. Sci. USA,2021
5. Lu, B., Jin, H., and Fu, J.Z. (2020). Molecular convergent and parallel evolution among four high-elevation anuran species from the Tibetan region. BMC Genom., 21.