期刊
MOLECULAR ECOLOGY
卷 23, 期 23, 页码 5680-5697出版社
WILEY
DOI: 10.1111/mec.12972
关键词
assignment tests; fishery; hierarchical population structure; local adaptation; microsatellites; single nucleotide polymorphisms; SNP array
资金
- Genomics Research and Development Initiative of Fisheries and Oceans Canada
- Bourse Postdoctorale en Recherche from the Fond de Recherche du Quebec - Nature et Technologies
- Alexander Graham-Bell scholarship from Natural Sciences and Engineering Research Council (NSERC) of Canada
- research programme of Ressources Aquatiques Quebec
Anadromous Atlantic salmon (Salmo salar) is a species of major conservation and management concern in North America, where population abundance has been declining over the past 30years. Effective conservation actions require the delineation of conservation units to appropriately reflect the spatial scale of intraspecific variation and local adaptation. Towards this goal, we used the most comprehensive genetic and genomic database for Atlantic salmon to date, covering the entire North American range of the species. The database included microsatellite data from 9142 individuals from 149 sampling locations and data from a medium-density SNP array providing genotypes for >3000 SNPs for 50 sampling locations. We used neutral and putatively selected loci to integrate adaptive information in the definition of conservation units. Bayesian clustering with the microsatellite data set and with neutral SNPs identified regional groupings largely consistent with previously published regional assessments. The use of outlier SNPs did not result in major differences in the regional groupings, suggesting that neutral markers can reflect the geographic scale of local adaptation despite not being under selection. We also performed assignment tests to compare power obtained from microsatellites, neutral SNPs and outlier SNPs. Using SNP data substantially improved power compared to microsatellites, and an assignment success of 97% to the population of origin and of 100% to the region of origin was achieved when all SNP loci were used. Using outlier SNPs only resulted in minor improvements to assignment success to the population of origin but improved regional assignment. We discuss the implications of these new genetic resources for the conservation and management of Atlantic salmon in North America.
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