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Range-wide parallel climate-associated genomic clines in Atlantic salmon.
R Soc Open Sci. 2017 Nov; 4(11):171394.RS

Abstract

Clinal variation across replicated environmental gradients can reveal evidence of local adaptation, providing insight into the demographic and evolutionary processes that shape intraspecific diversity. Using 1773 genome-wide single nucleotide polymorphisms we evaluated latitudinal variation in allele frequency for 134 populations of North American and European Atlantic salmon (Salmo salar). We detected 84 (4.74%) and 195 (11%) loci showing clinal patterns in North America and Europe, respectively, with 12 clinal loci in common between continents. Clinal single nucleotide polymorphisms were evenly distributed across the salmon genome and logistic regression revealed significant associations with latitude and seasonal temperatures, particularly average spring temperature in both continents. Loci displaying parallel clines were associated with several metabolic and immune functions, suggesting a potential basis for climate-associated adaptive differentiation. These climate-based clines collectively suggest evidence of large-scale environmental associated differences on either side of the North Atlantic. Our results support patterns of parallel evolution on both sides of the North Atlantic, with evidence of both similar and divergent underlying genetic architecture. The identification of climate-associated genomic clines illuminates the role of selection and demographic processes on intraspecific diversity in this species and provides a context in which to evaluate the impacts of climate change.

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Authors+Show Affiliations

Jeffery NW
Fisheries and Oceans Canada, Northwest Atlantic Fisheries Centre, St John's, Newfoundland and Labrador, CanadaA1C 5X1. Faculty of Computer Science, Dalhousie University, Halifax, Nova Scotia, CanadaB3H 4R2.
Stanley RRE
Fisheries and Oceans Canada, Bedford Institute of Oceanography, Dartmouth, Nova Scotia, CanadaB2Y 4A2.
Wringe BF
Fisheries and Oceans Canada, Northwest Atlantic Fisheries Centre, St John's, Newfoundland and Labrador, CanadaA1C 5X1.
Guijarro-Sabaniel J
Fisheries and Oceans Canada, Bedford Institute of Oceanography, Dartmouth, Nova Scotia, CanadaB2Y 4A2.
Bourret V
Laboratoire d'expertise biolégale, MFFP, Québec, Québec, CanadaG1P 3W8.
Bernatchez L
Department of Biology, Université Laval, Québec, Québec, CanadaG1 V 0A6.
Bentzen P
Department of Biology, Dalhousie University, Halifax, Nova Scotia, CanadaB3H 4R2.
Beiko RG
Faculty of Computer Science, Dalhousie University, Halifax, Nova Scotia, CanadaB3H 4R2.
Gilbey J
Marine Scotland, Freshwater Fisheries Laboratory, Faskally, Pitlochry PH16 5LB, UK.
Clément M
Centre for Fisheries Ecosystems Research, Fisheries and Marine Institute, Memorial University of Newfoundland, St John's, NL, Canada. Labrador Institute, Memorial University of Newfoundland, Happy Valley-Goose Bay, NL, Canada.
Bradbury IR
Fisheries and Oceans Canada, Northwest Atlantic Fisheries Centre, St John's, Newfoundland and Labrador, CanadaA1C 5X1. Faculty of Computer Science, Dalhousie University, Halifax, Nova Scotia, CanadaB3H 4R2.

Pub Type(s)

Journal Article

Language

eng

PubMed ID

29291123

Citation

Jeffery, Nicholas W., et al. "Range-wide Parallel Climate-associated Genomic Clines in Atlantic Salmon." Royal Society Open Science, vol. 4, no. 11, 2017, p. 171394.
Jeffery NW, Stanley RRE, Wringe BF, et al. Range-wide parallel climate-associated genomic clines in Atlantic salmon. R Soc Open Sci. 2017;4(11):171394.
Jeffery, N. W., Stanley, R. R. E., Wringe, B. F., Guijarro-Sabaniel, J., Bourret, V., Bernatchez, L., Bentzen, P., Beiko, R. G., Gilbey, J., Clément, M., & Bradbury, I. R. (2017). Range-wide parallel climate-associated genomic clines in Atlantic salmon. Royal Society Open Science, 4(11), 171394. https://doi.org/10.1098/rsos.171394
Jeffery NW, et al. Range-wide Parallel Climate-associated Genomic Clines in Atlantic Salmon. R Soc Open Sci. 2017;4(11):171394. PubMed PMID: 29291123.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Range-wide parallel climate-associated genomic clines in Atlantic salmon. AU - Jeffery,Nicholas W, AU - Stanley,Ryan R E, AU - Wringe,Brendan F, AU - Guijarro-Sabaniel,Javier, AU - Bourret,Vincent, AU - Bernatchez,Louis, AU - Bentzen,Paul, AU - Beiko,Robert G, AU - Gilbey,John, AU - Clément,Marie, AU - Bradbury,Ian R, Y1 - 2017/11/15/ PY - 2017/09/14/received PY - 2017/10/13/accepted PY - 2018/1/2/entrez PY - 2018/1/2/pubmed PY - 2018/1/2/medline KW - Atlantic salmon KW - SNPs KW - adaptation KW - clines KW - parallel evolution SP - 171394 EP - 171394 JF - Royal Society open science JO - R Soc Open Sci VL - 4 IS - 11 N2 - Clinal variation across replicated environmental gradients can reveal evidence of local adaptation, providing insight into the demographic and evolutionary processes that shape intraspecific diversity. Using 1773 genome-wide single nucleotide polymorphisms we evaluated latitudinal variation in allele frequency for 134 populations of North American and European Atlantic salmon (Salmo salar). We detected 84 (4.74%) and 195 (11%) loci showing clinal patterns in North America and Europe, respectively, with 12 clinal loci in common between continents. Clinal single nucleotide polymorphisms were evenly distributed across the salmon genome and logistic regression revealed significant associations with latitude and seasonal temperatures, particularly average spring temperature in both continents. Loci displaying parallel clines were associated with several metabolic and immune functions, suggesting a potential basis for climate-associated adaptive differentiation. These climate-based clines collectively suggest evidence of large-scale environmental associated differences on either side of the North Atlantic. Our results support patterns of parallel evolution on both sides of the North Atlantic, with evidence of both similar and divergent underlying genetic architecture. The identification of climate-associated genomic clines illuminates the role of selection and demographic processes on intraspecific diversity in this species and provides a context in which to evaluate the impacts of climate change. SN - 2054-5703 UR - https://www.unboundmedicine.com/medline/citation/29291123/Range_wide_parallel_climate_associated_genomic_clines_in_Atlantic_salmon_ DB - PRIME DP - Unbound Medicine ER -