Using Genomic Data to Guide Walleye Management in the Great Lakes

Euclide, Peter T.; Robinson, Jason M.; Faust, Matthew D.; Ludsin, Stuart A.; MacDougall, Thomas M.; Marschall, Elizabeth A.; Chen, Kuan‐Yu; Wilson, Chris; Bootsma, Matthew; Stott, Wendylee; Scribner, Kim T.; Larson, Wesley A.

doi:10.1007/978-3-030-80678-1_5

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“…Walleye is a highly mobile predatory species of fish native to North America, with an expansive endemic range spanning most of the United States and Canada (Figure S1–S8 ; Billington et al, 2011 ). There are many applications for a genetic panel for walleye, including tracking hatchery outplants, genetic‐informed domestication of aquaculture strains, population genetics, and genetic stock identification (GSI) of natural populations (Euclide, Robinson, et al, 2021 ). The GTSeq panel developed by Bootsma et al ( 2020 ) was created specifically for walleye in inland lakes in the Mississippi River basin of Wisconsin and Minnesota (Bootsma et al, 2020 , 2021 ).…”

Section: Introductionmentioning

confidence: 99%

A new GTSeq resource to facilitate multijurisdictional research and management of walleye Sander vitreus

Euclide

Larson

Bootsma

et al. 2022

Ecology and Evolution

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Conservation and management professionals often work across jurisdictional boundaries to identify broad ecological patterns. These collaborations help to protect populations whose distributions span political borders. One common limitation to multijurisdictional collaboration is consistency in data recording and reporting. This limitation can impact genetic research, which relies on data about specific markers in an organism's genome. Incomplete overlap of markers between separate studies can prevent direct comparisons of results. Standardized marker panels can reduce the impact of this issue and provide a common starting place for new research. Genotyping‐in‐thousands (GTSeq) is one approach used to create standardized marker panels for nonmodel organisms. Here, we describe the development, optimization, and early assessments of a new GTSeq panel for use with walleye ( Sander vitreus ) from the Great Lakes region of North America. High genome‐coverage sequencing conducted using RAD capture provided genotypes for thousands of single nucleotide polymorphisms (SNPs). From these markers, SNP and microhaplotype markers were chosen, which were informative for genetic stock identification (GSI) and kinship analysis. The final GTSeq panel contained 500 markers, including 197 microhaplotypes and 303 SNPs. Leave‐one‐out GSI simulations indicated that GSI accuracy should be greater than 80% in most jurisdictions. The false‐positive rates of parent‐offspring and full‐sibling kinship identification were found to be low. Finally, genotypes could be consistently scored among separate sequencing runs >94% of the time. Results indicate that the GTSeq panel that we developed should perform well for multijurisdictional walleye research throughout the Great Lakes region.

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