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Putatively adaptive genetic variation in the giant California sea cucumber (Parastichopus californicus) as revealed by environmental association analysis of restriction-site associated DNA sequencing data
Univ Toronto, Canada.
Linköping University, Department of Physics, Chemistry and Biology, Biology. Linköping University, Faculty of Science & Engineering.
Fisheries and Oceans Canada, Canada.
Univ Laval, Canada.
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2018 (English)In: Molecular Ecology, ISSN 0962-1083, E-ISSN 1365-294X, Vol. 27, no 24, p. 5035-5048Article in journal (Refereed) Published
Abstract [en]

Understanding the spatial scale of local adaptation and the factors associated with adaptive diversity are important objectives for ecology and evolutionary biology, and have significant implications for effective conservation and management of wild populations and natural resources. In this study, we used an environmental association analysis to identify important bioclimatic variables correlated with putatively adaptive genetic variation in a benthic marine invertebrate-the giant California sea cucumber (Parastichopus californicus)-spanning coastal British Columbia and southeastern Alaska. We used a redundancy analysis (RDA) with 3,699 single nucleotide polymorphisms (SNPs) obtained using RAD sequencing to detect candidate markers associated with 11 bioclimatic variables, including sea bottom and surface conditions, across two spatial scales (entire study area and within subregions). At the broadest scale, RDA revealed 59 candidate SNPs, 86% of which were associated with mean bottom temperature. Similar patterns were identified when population structure was accounted for. Additive polygenic scores, which provide a measure of the cumulative signal across all candidate SNPs, were strongly correlated with mean bottom temperature, consistent with spatially varying selection across a thermal gradient. At a finer scale, 23 candidate SNPs were detected, primarily associated with surface salinity (26%) and bottom current velocity (17%). Our findings suggest that environmental variables may play a role as drivers of spatially varying selection for P. californicus. These results provide context for future studies to evaluate the genetic basis of local adaptation in P. californicus and help inform the relevant scales and environmental variables for in situ field studies of putative adaptive variation in marine invertebrates.

Place, publisher, year, edition, pages
WILEY , 2018. Vol. 27, no 24, p. 5035-5048
Keywords [en]
climate data; environmental association analysis; marine invertebrate; RAD-sequencing; redundancy analysis; seascape genomics
National Category
Evolutionary Biology
Identifiers
URN: urn:nbn:se:liu:diva-153978DOI: 10.1111/mec.14942ISI: 000454600500007PubMedID: 30427103OAI: oai:DiVA.org:liu-153978DiVA, id: diva2:1281114
Note

Funding Agencies|Natural Sciences and Engineering Research Council of Canada [5134, D3-460408-2014, STPGP 430706-2012]; Program for Aquaculture Regulatory Research; Ressources Aquatiques Quebec

Available from: 2019-01-21 Created: 2019-01-21 Last updated: 2019-01-21

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