Differences in genetic architecture between continents at a major locus previously associated with sea age at sexual maturity in European Atlantic salmon

Boulding, Elizabeth G.; Ang, Keng Pee; Elliott, J. Alex; Powell, Frank C.; Schaeffer, L.R.

doi:10.1016/j.aquaculture.2018.09.025

Cited by 35 publications

(46 citation statements)

References 63 publications

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“…Sinclair-Waters, J. Ødegård, S. A. Korsvoll, T. Moen, S. Lien, C. R. Primmer and N. J. Barson, unpublished results). However, associations in North American-derived salmon populations and aquaculture stocks have been mixed, possibly due to little or no polymorphism at the locus in North American populations (Boulding et al 2019;Kusche et al 2017;Mohamed et al 2019). In addition to Atlantic salmon, VGLL3 has also been linked with pubertal timing, growth and body condition in humans (Elks et al 2010;Cousminer et al 2013;Tu et al 2015), which indicates that it may have an evolutionarily conserved role in the regulation of vertebrate maturation timing.…”

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confidence: 99%

Transcription Profiles of Age-at-Maturity-Associated Genes Suggest Cell Fate Commitment Regulation as a Key Factor in the Atlantic Salmon Maturation Process

Kurko

Debes

House

et al. 2020

G3 Genes|Genomes|Genetics

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Despite recent taxonomic diversification in studies linking genotype with phenotype, follow-up studies aimed at understanding the molecular processes of such genotype-phenotype associations remain rare. The age at which an individual reaches sexual maturity is an important fitness trait in many wild species. However, the molecular mechanisms regulating maturation timing processes remain obscure. A recent genome-wide association study in Atlantic salmon (Salmo salar) identified large-effect age-at-maturity-associated chromosomal regions including genes vgll3, akap11 and six6, which have roles in adipogenesis, spermatogenesis and the hypothalamic-pituitary-gonadal (HPG) axis, respectively. Here, we determine expression patterns of these genes during salmon development and their potential molecular partners and pathways. Using Nanostring transcription profiling technology, we show development- and tissue-specific mRNA expression patterns for vgll3, akap11 and six6. Correlated expression levels of vgll3 and akap11, which have adjacent chromosomal location, suggests they may have shared regulation. Further, vgll3 correlating with arhgap6 and yap1, and akap11 with lats1 and yap1 suggests that Vgll3 and Akap11 take part in actin cytoskeleton regulation. Tissue-specific expression results indicate that vgll3 and akap11 paralogs have sex-dependent expression patterns in gonads. Moreover, six6 correlating with slc38a6 and rtn1, and Hippo signaling genes suggests that Six6 could have a broader role in the HPG neuroendrocrine and cell fate commitment regulation, respectively. We conclude that Vgll3, Akap11 and Six6 may influence Atlantic salmon maturation timing via affecting adipogenesis and gametogenesis by regulating cell fate commitment and the HPG axis. These results may help to unravel general molecular mechanisms behind maturation.

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confidence: 99%

Transcription Profiles of Age-at-Maturity-Associated Genes Suggest Cell Fate Commitment Regulation as a Key Factor in the Atlantic Salmon Maturation Process

Kurko

Debes

House

et al. 2020

G3 Genes|Genomes|Genetics

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“…However, major QTL seem to be rare for most pathogen‐resistance, carcass or growth traits, and most traits investigated appear to be under polygenic control (e.g. Boison, Gjerde, Hillestad, Makvandi‐Nejad, & Moghadam, ; Boulding et al, ; Gutierrez et al, , ; Holborn, Ang, Elliott, Powell, & Boulding, ; Holborn et al, ; Pedersen et al, , ; Sodeland et al, ; Yáñez, Bangera, Lhorente, Oyarzún, & Neira, ; Yáñez Houston & Newman, ; Yáñez, Lhorente, et al, ).…”

Section: Discussionmentioning

confidence: 99%

“…One of the primary advantages of using linkage mapping within families to detect QTL is that it controls for population stratification (Ashton, Ritchie, & Wellenreuther, ). In contrast, standard genome‐ide association (GWA) methods require correction of stratification before they can accurately detect QTL, which can be challenging in admixed populations (Ott, Kamatani, & Lathrop, ) especially populations from different continents (Boulding, Ang, Elliott, Powell, & Schaeffer, ). Quantitative trait loci mapping experiments in Atlantic salmon populations have often shown high statistical power because they can exploit linkage, linkage disequilibrium and benefit from the limited, telomere proximal recombination observed in males (Hayes, Gjuvsland, & Omholt, ; Lien et al, ).…”

Section: Introductionmentioning

confidence: 99%

Mapping quantitative trait loci for infectious salmon anaemia resistance in a North American strain of Atlantic salmon

et al. 2019

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Infectious salmon anaemia (ISA) is a highly virulent viral disease of Atlantic salmon that causes massive economic losses to infected aquaculture operations. Our goal was to detect and map quantitative trait loci (QTL) that confer resistance to ISA in an admixed commercial strain of Atlantic salmon that was largely founded from the Saint John River (SJR) in North America. Full‐sibling families were challenged with a virulent strain of ISA virus. Mortality was tracked during two annual trials with individual fish that survived to the end of the trial being classified as ‘resistant’, and those that died were classified as ‘susceptible’. Ten families with intermediate levels of mortality and an average size of 54.2 individuals were chosen for genotyping with a 50K SNP array designed for the SJR strain. Single nucleotide polymorphisms that were segregating within families were first used to make a composite 11K female linkage map that was then used to find the positions of QTL for ISA resistance using a half‐sib model. The dam‐based HS model detected a total of three QTL for ISA resistance including an experiment‐wide significant QTL on Ssa25 that accounted for 8.3% of the phenotypic variance and chromosome‐wide significant QTL on Ssa03 and on Ssa04 that accounted for 6.0% and 6.6% respectively. We conclude that classic linkage mapping within families continues to be an important method of detecting QTL for oligogenic traits in strains founded from multiple populations. Single nucleotide polymorphisms with moderate trait effects are being used to select within families for more ISA‐resistant strains of Atlantic salmon.

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“…The genetics of age at maturity is still poorly understood in salmonids; however, studies to date appear to show different mechanisms underlying variation in age at maturity among species. In Atlantic salmon, a single gene (VGLL3) explains 39% of the variation in age at maturity in European populations (Barson et al 2015) but does not appear to influence age at maturity in North American populations (Boulding et al 2019). In an aquacultural strain of Atlantic salmon, multiple genomic regions, including the VGLL3 gene, explained a total of 78% of the variation in age at maturity (Sinclair-Waters et al 2020).…”

Section: Introductionmentioning

confidence: 99%

A mobile sex-determining region, male-specific haplotypes, and rearing environment influence age at maturity in Chinook salmon

McKinney

Nichols

Ford

2020

Preprint

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Differences in genetic architecture between continents at a major locus previously associated with sea age at sexual maturity in European Atlantic salmon

Cited by 35 publications

References 63 publications

Transcription Profiles of Age-at-Maturity-Associated Genes Suggest Cell Fate Commitment Regulation as a Key Factor in the Atlantic Salmon Maturation Process

Transcription Profiles of Age-at-Maturity-Associated Genes Suggest Cell Fate Commitment Regulation as a Key Factor in the Atlantic Salmon Maturation Process

Mapping quantitative trait loci for infectious salmon anaemia resistance in a North American strain of Atlantic salmon

A mobile sex-determining region, male-specific haplotypes, and rearing environment influence age at maturity in Chinook salmon

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