Beyond large-effect loci : large-scale GWAS reveals a mixed large-effect and polygenic architecture for age at maturity of Atlantic salmon

Show full item record



Permalink

http://hdl.handle.net/10138/313659

Citation

Sinclair-Waters , M , Odegard , J , Korsvoll , S A , Moen , T , Lien , S , Primmer , C R & Barson , N J 2020 , ' Beyond large-effect loci : large-scale GWAS reveals a mixed large-effect and polygenic architecture for age at maturity of Atlantic salmon ' , Genetics Selection Evolution , vol. 52 , no. 1 , 9 . https://doi.org/10.1186/s12711-020-0529-8

Title: Beyond large-effect loci : large-scale GWAS reveals a mixed large-effect and polygenic architecture for age at maturity of Atlantic salmon
Author: Sinclair-Waters, Marion; Odegard, Jorgen; Korsvoll, Sven Arild; Moen, Thomas; Lien, Sigbjorn; Primmer, Craig R.; Barson, Nicola J.
Other contributor: University of Helsinki, Organismal and Evolutionary Biology Research Programme
University of Helsinki, Evolution, Conservation, and Genomics


Date: 2020-02-12
Language: eng
Number of pages: 11
Belongs to series: Genetics Selection Evolution
ISSN: 0999-193X
DOI: https://doi.org/10.1186/s12711-020-0529-8
URI: http://hdl.handle.net/10138/313659
Abstract: Background Understanding genetic architecture is essential for determining how traits will change in response to evolutionary processes such as selection, genetic drift and/or gene flow. In Atlantic salmon, age at maturity is an important life history trait that affects factors such as survival, reproductive success, and growth. Furthermore, age at maturity can seriously impact aquaculture production. Therefore, characterizing the genetic architecture that underlies variation in age at maturity is of key interest. Results Here, we refine our understanding of the genetic architecture for age at maturity of male Atlantic salmon using a genome-wide association study of 11,166 males from a single aquaculture strain, using imputed genotypes at 512,397 single nucleotide polymorphisms (SNPs). All individuals were genotyped with a 50K SNP array and imputed to higher density using parents genotyped with a 930K SNP array and pedigree information. We found significant association signals on 28 of 29 chromosomes (P-values: 8.7 x 10(-133)-9.8 x 10(-8)), including two very strong signals spanning the six6 and vgll3 gene regions on chromosomes 9 and 25, respectively. Furthermore, we identified 116 independent signals that tagged 120 candidate genes with varying effect sizes. Five of the candidate genes found here were previously associated with age at maturity in other vertebrates, including humans. Discussion These results reveal a mixed architecture of large-effect loci and a polygenic component that consists of multiple smaller-effect loci, suggesting a more complex genetic architecture of Atlantic salmon age at maturity than previously thought. This more complex architecture will have implications for selection on this key trait in aquaculture and for management of wild salmon populations.
Subject: SEXUAL-MATURATION
COMMON VARIANTS
COMPLEX TRAITS
SNP ANALYSIS
POPULATION
ASSOCIATION
EVOLUTION
DOMINANCE
GENOMICS
SALAR
1181 Ecology, evolutionary biology
Rights:


Files in this item

Total number of downloads: Loading...

Files Size Format View
s12711_020_0529_8.pdf 1.435Mb PDF View/Open

This item appears in the following Collection(s)

Show full item record