Evaluating genetic traceability methods for captive‑bred marine fish and their applications in fisheries management and wildlife forensics

Article English OPEN
Bylemans, J ; Maes, Ge ; Diopere, E ; Cariani, Alessia ; Senn, H ; Taylor, Mi ; Helyar, S ; Bargelloni, L ; Bonaldo, Alessio ; Carvalho, G ; Guarniero, Ilaria ; Komen, H ; Martinsohn, Jt ; Nielsen, Ee ; Tinti, Fausto ; Volckaert, Fam ; Ogden, R. (2016)
  • Related identifiers: doi: 10.3354/aei00164
  • Subject: STOCK ENHANCEMENT PROGRAMS | COMMON SOLE | GADOID CULTURE | POPULATION ASSIGNMENT | Aquaculture · Conservation genetics · Escapees · Fisheries management · Wildlife forensics | PARENTAGE ANALYSIS | MARINE | CHARR SALVELINUS-FONTINALIS | SOLE SOLEA-SENEGALENSIS | Aquaculture | Escapees | NATURAL-POPULATIONS | FISHERIES | Wildlife forensics | Fisheries management | ATLANTIC SALMON | MARKET SUBSTITUTION | Conservation genetics

Growing demands for marine fish products is leading to increased pressure on already depleted wild populations and a rise in aquaculture production. Consequently, more captive-bred fish are released into the wild through accidental escape or deliberate releases. The increased mixing of captive-bred and wild fish may affect the ecological and/or genetic integrity of wild fish populations. Unambiguous identification tools for captive-bred fish will be highly valuable to manage risks (fisheries management) and tracing of escapees and seafood products (wildlife forensics). Using single nucleotide polymorphism (SNP) data from captive-bred and wild populations of Atlantic cod <i>Gadus morhua</i> L. and sole <i>Solea solea</i> L., we explored the efficiency of population and parentage assignment techniques for the identification and tracing of captive-bred fish. Simulated and empirical data were used to correct for stochastic genetic effects. Overall, parentage assignment performed well when a large effective population size characterized the broodstock and escapees originated from early generations of captive breeding. Consequently, parentage assignments are particularly useful from a fisheries management perspective to monitor the effects of deliberate releases of captive-bred fish on wild populations. Population assignment proved to be more efficient after several generations of captive breeding, which makes it a useful method in forensic applications for well-established aquaculture species. We suggest the implementation of a case-by-case strategy when choosing the best method.
  • References (80)
    80 references, page 1 of 8

    Abadía-Cardoso A, Anderson EC, Pearse DE, Garza JC (2013) Large-scale parentage analysis reveals reproductive patterns and heritability of spawn timing in a hatchery population of steelhead (Oncorhynchus mykiss). Mol Ecol 22:4733−4746

    Anderson EC (2010a) Assessing the power of informative subsets of loci for population assignment: standard methods are upwardly biased. Mol Ecol Resour 10:701−710

    Anderson EC (2010b) Computational algorithms and userfriendly software for parentage-based tagging of Pacific salmonids. Final report to Pacific Salmon Commission's Chinook Technical Committee. NOAA Southwest Fisheries Science Center, Santa Cruz, CA

    Anderson EC (2014) Simple simulation of Mendelian inheritance of unlinked markers from specified matings and populations. Source code for Nookie software. http:// github.com/eriqande/nookie

    Anderson EC, Garza JC (2006) The power of single-nucleotide polymorphisms for large-scale parentage inference. Genetics 172:2567−2582

    André C, Larsson LC, Laikre L, Bekkevold D and others (2011) Detecting population structure in a high geneflow species, Atlantic herring (Clupea harengus): direct, simultaneous evaluation of neutral vs putatively selected loci. Heredity 106:270−280

    Arechavala-Lopez P, Fernandez-Jover D, Black KD, Ladoukakis E, Bayle-Sempere JT, Sanchez-Jerez P, Dempster T (2013) Differentiating the wild or farmed origin of Mediterranean fish: a review of tools for sea bream and sea bass. Rev Aquacult 5:137−157

    Bekkevold D, Hansen MM, Nielsen EE (2006) Genetic impact of gadoid culture on wild fish populations: predictions, lessons from salmonids, and possibilities for minimizing adverse effects. ICES J Mar Sci 63:198−208

    Belkhir K, Borsa P, Chikhi L, Raufaste N, Bonhomme F (2004) GENETIX 4.05, logiciel sous Windows TM pour la génétique des populations. Lab génome, Popul Interact CNRS Umr 5000, Université de Montpellier II, Montpellier

    Bell JD, Leber KM, Blankenship HL, Loneragan NR, Masuda R (2008) A new era for restocking, stock enhancement and sea ranching of coastal fisheries resources. Rev Fish Sci 16:1−9

  • Metrics
    No metrics available