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Genomics and conservation units: The genetic basis of adult migration timing in Pacific salmonids

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      Abstract

      It is now routinely possible to generate genomics‐scale datasets for nonmodel species; however, many questions remain about how best to use these data for conservation and management. Some recent genomics studies of anadromous Pacific salmonids have reported a strong association between alleles at one or a very few genes and a key life history trait (adult migration timing) that has played an important role in defining conservation units. Publication of these results has already spurred a legal challenge to the existing framework for managing these species, which was developed under the paradigm that most phenotypic traits are controlled by many genes of small effect, and that parallel evolution of life history traits is common. But what if a key life history trait can only be expressed if a specific allele is present? Does the current framework need to be modified to account for the new genomics results, as some now propose? Although this real‐world example focuses on Pacific salmonids, the issues regarding how genomics can inform us about the genetic basis of phenotypic traits, and what that means for applied conservation, are much more general. In this perspective, we consider these issues and outline a general process that can be used to help generate the types of additional information that would be needed to make informed decisions about the adequacy of existing conservation and management frameworks.

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      Most cited references 45

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      Defining 'Evolutionarily Significant Units' for conservation.

       C Möritz (1994)
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        Defining the role of common variation in the genomic and biological architecture of adult human height

        Using genome-wide data from 253,288 individuals, we identified 697 variants at genome-wide significance that together explain one-fifth of heritability for adult height. By testing different numbers of variants in independent studies, we show that the most strongly associated ~2,000, ~3,700 and ~9,500 SNPs explained ~21%, ~24% and ~29% of phenotypic variance. Furthermore, all common variants together captured the majority (60%) of heritability. The 697 variants clustered in 423 loci enriched for genes, pathways, and tissue-types known to be involved in growth and together implicated genes and pathways not highlighted in earlier efforts, such as signaling by fibroblast growth factors, WNT/beta-catenin, and chondroitin sulfate-related genes. We identified several genes and pathways not previously connected with human skeletal growth, including mTOR, osteoglycin and binding of hyaluronic acid. Our results indicate a genetic architecture for human height that is characterized by a very large but finite number (thousands) of causal variants.
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          Considering evolutionary processes in conservation biology.

          Conservation biologists assign population distinctiveness by classifying populations as evolutionarily significant units (ESUs). Historically, this classification has included ecological and genetic data. However, recent ESU concepts, coupled with increasing availability of data on neutral genetic variation, have led to criteria based exclusively on molecular phylogenies. We argue that the earlier definitions of ESUs, which incorporated ecological data and genetic variation of adaptive significance, are more relevant for conservation. Furthermore, this dichotomous summary (ESU or not) of a continuum of population differentiation is not adequate for determining appropriate management actions. We argue for a broader categorization of population distinctiveness based on concepts of ecological and genetic exchangeability (sensu Templeton).
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            Author and article information

            Affiliations
            [ 1 ] NOAA Fisheries Northwest Fisheries Science Center Seattle Washington
            [ 2 ] NOAA Fisheries Southwest Fisheries Science Center Santa Cruz California
            Author notes
            [* ] Correspondence

            Robin Waples, NOAA Fisheries, Northwest Fisheries Science Center, Seattle, WA.

            Email: robin.waples@ 123456noaa.gov

            Contributors
            ORCID: http://orcid.org/0000-0003-3362-7590, robin.waples@noaa.gov
            Journal
            Evol Appl
            Evol Appl
            10.1111/(ISSN)1752-4571
            EVA
            Evolutionary Applications
            John Wiley and Sons Inc. (Hoboken )
            1752-4571
            28 August 2018
            October 2018
            : 11
            : 9 ( doiID: 10.1111/eva.2018.11.issue-9 )
            : 1518-1526
            6183503 10.1111/eva.12687 EVA12687
            Published 2018. This article is a U.S. Government work and is in the public domain in the USA. Evolutionary Applications published by John Wiley & Sons Ltd

            This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.

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            Figures: 2, Tables: 0, Pages: 9, Words: 7751
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            Custom metadata
            2.0
            eva12687
            October 2018
            Converter:WILEY_ML3GV2_TO_NLMPMC version:version=5.5.0.1 mode:remove_FC converted:12.10.2018

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