Data for: Refining the genomic location of single nucleotide polymorphism variation affecting Atlantic salmon maturation timing at a key large‐effect locus
Efforts to understand the genetic underpinnings of phenotypic variation are becoming more and more frequent in molecular ecology. Such efforts often lead to the identification of candidate regions showing signals of association and/or selection. These regions may contain multiple genes and therefore...
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ftzenodo:oai:zenodo.org:5672650 2023-06-06T11:52:00+02:00 Data for: Refining the genomic location of single nucleotide polymorphism variation affecting Atlantic salmon maturation timing at a key large‐effect locus Sinclair-Waters, Marion 2021-11-10 https://zenodo.org/record/5672650 https://doi.org/10.5061/dryad.kwh70rz3v unknown https://zenodo.org/communities/dryad https://zenodo.org/record/5672650 https://doi.org/10.5061/dryad.kwh70rz3v oai:zenodo.org:5672650 info:eu-repo/semantics/openAccess https://creativecommons.org/publicdomain/zero/1.0/legalcode info:eu-repo/semantics/other dataset 2021 ftzenodo https://doi.org/10.5061/dryad.kwh70rz3v 2023-04-13T21:18:21Z Efforts to understand the genetic underpinnings of phenotypic variation are becoming more and more frequent in molecular ecology. Such efforts often lead to the identification of candidate regions showing signals of association and/or selection. These regions may contain multiple genes and therefore validation of which genes are actually responsible for the signal is required. In Atlantic salmon (Salmo salar), a large‐effect locus for maturation timing, an ecologically important trait, occurs in a genomic region including two genes, vgll3 and akap11, but data for clearly determining which of the genes (or both) contribute to the association have been lacking. Here, we take advantage of natural recombination events detected between the two candidate genes in a salmon broodstock to reduce linkage disequilibrium at the locus, thus enabling delineation of the influence of variation at these two genes on early maturation. By rearing 5,895 males to maturation age, of which 81% had recombinant vgll3/akap11 allelic combinations, we found that vgll3 single nucleotide polymorphism (SNP) variation was strongly associated with early maturation, whereas there was little or no association between akap11 SNP variation and early maturation. These findings provide strong evidence supporting vgll3 as the primary candidate gene in the chromosome 25 locus for influencing early maturation. This will help guide future research for understanding the genetic processes controlling early maturation. This also exemplifies the utility of natural recombinants to more precisely map causal variation underlying ecologically important phenotypic diversity. Dataset Atlantic salmon Salmo salar Zenodo |
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Efforts to understand the genetic underpinnings of phenotypic variation are becoming more and more frequent in molecular ecology. Such efforts often lead to the identification of candidate regions showing signals of association and/or selection. These regions may contain multiple genes and therefore validation of which genes are actually responsible for the signal is required. In Atlantic salmon (Salmo salar), a large‐effect locus for maturation timing, an ecologically important trait, occurs in a genomic region including two genes, vgll3 and akap11, but data for clearly determining which of the genes (or both) contribute to the association have been lacking. Here, we take advantage of natural recombination events detected between the two candidate genes in a salmon broodstock to reduce linkage disequilibrium at the locus, thus enabling delineation of the influence of variation at these two genes on early maturation. By rearing 5,895 males to maturation age, of which 81% had recombinant vgll3/akap11 allelic combinations, we found that vgll3 single nucleotide polymorphism (SNP) variation was strongly associated with early maturation, whereas there was little or no association between akap11 SNP variation and early maturation. These findings provide strong evidence supporting vgll3 as the primary candidate gene in the chromosome 25 locus for influencing early maturation. This will help guide future research for understanding the genetic processes controlling early maturation. This also exemplifies the utility of natural recombinants to more precisely map causal variation underlying ecologically important phenotypic diversity. |
format |
Dataset |
author |
Sinclair-Waters, Marion |
spellingShingle |
Sinclair-Waters, Marion Data for: Refining the genomic location of single nucleotide polymorphism variation affecting Atlantic salmon maturation timing at a key large‐effect locus |
author_facet |
Sinclair-Waters, Marion |
author_sort |
Sinclair-Waters, Marion |
title |
Data for: Refining the genomic location of single nucleotide polymorphism variation affecting Atlantic salmon maturation timing at a key large‐effect locus |
title_short |
Data for: Refining the genomic location of single nucleotide polymorphism variation affecting Atlantic salmon maturation timing at a key large‐effect locus |
title_full |
Data for: Refining the genomic location of single nucleotide polymorphism variation affecting Atlantic salmon maturation timing at a key large‐effect locus |
title_fullStr |
Data for: Refining the genomic location of single nucleotide polymorphism variation affecting Atlantic salmon maturation timing at a key large‐effect locus |
title_full_unstemmed |
Data for: Refining the genomic location of single nucleotide polymorphism variation affecting Atlantic salmon maturation timing at a key large‐effect locus |
title_sort |
data for: refining the genomic location of single nucleotide polymorphism variation affecting atlantic salmon maturation timing at a key large‐effect locus |
publishDate |
2021 |
url |
https://zenodo.org/record/5672650 https://doi.org/10.5061/dryad.kwh70rz3v |
genre |
Atlantic salmon Salmo salar |
genre_facet |
Atlantic salmon Salmo salar |
op_relation |
https://zenodo.org/communities/dryad https://zenodo.org/record/5672650 https://doi.org/10.5061/dryad.kwh70rz3v oai:zenodo.org:5672650 |
op_rights |
info:eu-repo/semantics/openAccess https://creativecommons.org/publicdomain/zero/1.0/legalcode |
op_doi |
https://doi.org/10.5061/dryad.kwh70rz3v |
_version_ |
1767957816171036672 |