ArticleEvolutionary applications2017
A genome scan for selection signatures comparing farmed Atlantic salmon with two wild populations: Testing colocalization among outlier markers, candidate genes, and quantitative trait loci for production traits.
Article in Evolutionary applications, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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23 citing papers in PubMed, 54 citations in OpenAlex.
- Modelling the Consequences of Domestication-Introgression in Wild Populations Using Genetic Markers Under Varying Degrees of Selection.Evolutionary applications · 2025Article
- Parallel Selection in Domesticated Atlantic Salmon from Divergent Founders Including on Whole-Genome Duplication-derived Homeologous Regions.Genome biology and evolution · 2025Article
- Article
- Genome-wide detection of positive and balancing signatures of selection shared by four domesticated rainbow trout populations (Oncorhynchus mykiss).Genetics, selection, evolution : GSE · 2024Article
- Investigating the role of genetic variation inEcology and evolution · 2023Article
- The generation of the first chromosome-level de novo genome assembly and the development and validation of a 50K SNP array for the St. John River aquaculture strain of North American Atlantic salmon.G3 (Bethesda, Md.) · 2023Article
- Whole-genome re-sequencing provides key genomic insights in farmed Arctic charr (Evolutionary applications · 2023Article
- Genomic evidence of recent European introgression into North American farmed and wild Atlantic salmon.Evolutionary applications · 2022Article
- Genomic selection signatures in farmedEvolutionary applications · 2022Article
- Genetic diversity and selective sweeps in historical and modern Canadian spring wheat cultivars using the 90K SNP array.Scientific reports · 2021Article
- Environment-driven reprogramming of gamete DNA methylation occurs during maturation and is transmitted intergenerationally in Atlantic Salmon.G3 (Bethesda, Md.) · 2021Article
- Detection of selection signatures in farmed coho salmon (Oncorhynchus kisutch) using dense genome-wide information.Scientific reports · 2021Article
- Evolutionary responses of marine organisms to urbanized seascapes.Evolutionary applications · 2021Article
- Whole genome re-sequencing reveals recent signatures of selection in three strains of farmed Nile tilapia (Oreochromis niloticus).Scientific reports · 2020Article
- Genomic signals found using RNA sequencing show signatures of selection and subtle population differentiation in walleye (Ecology and evolution · 2020Article
- Changed Patterns of Genomic Variation Following Recent Domestication: Selection Sweeps in Farmed Atlantic Salmon.Frontiers in genetics · 2020Article
- Signatures of selection for bonamiosis resistance in European flat oyster (Evolutionary applications · 2019Article
- Atlantic salmon (Salmo salar L.) genetics in the 21st century: taking leaps forward in aquaculture and biological understanding.Animal genetics · 2019Review
- Multiple Selection Signatures in Farmed Atlantic Salmon Adapted to Different Environments Across Hemispheres.Frontiers in genetics · 2019Article
- Can variation in standard metabolic rate explain context-dependent performance of farmed Atlantic salmon offspring?Ecology and evolution · 2019Article
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Authors and funding
7 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Comparative genome scans can be used to identify chromosome regions, but not traits, that are putatively under selection. Identification of targeted traits may be more likely in recently domesticated populations under strong artificial selection for increased production. We used a North American Atlantic salmon 6K SNP dataset to locate genome regions of an aquaculture strain (Saint John River) that were highly diverged from that of its putative wild founder population (Tobique River). First, admixed individuals with partial European ancestry were detected using STRUCTURE and removed from the dataset. Outlier loci were then identified as those showing extreme differentiation between the aquaculture population and the founder population. All Arlequin methods identified an overlapping subset of 17 outlier loci, three of which were also identified by BayeScan. Many outlier loci were near candidate genes and some were near published quantitative trait loci (QTLs) for growth, appetite, maturity, or disease resistance. Parallel comparisons using a wild, nonfounder population (Stewiacke River) yielded only one overlapping outlier locus as well as a known maturity QTL. We conclude that genome scans comparing a recently domesticated strain with its wild founder population can facilitate identification of candidate genes for traits known to have been under strong artificial selection.
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