DOI: 10.5061/dryad.gf1vhhmpg
title: Data From: Parentage‐based tagging combined with genetic stock identification is a cost‐effective and viable replacement for coded‐wire tagging in large‐scale assessments of marine Chinook salmon fisheries in British Columbia, Canada

description: Wild Pacific salmon, including Chinook salmon Oncorhynchus
 tshawytscha, have been supplemented with hatchery propagation for over
 50 years in support of increased ocean harvest, mitigation for
 hydroelectric development, and conservation of threatened populations. In
 Canada, the Wild Salmon Policy for Pacific salmon was established with the
 goal of maintaining and restoring healthy and diverse Pacific salmon
 populations, making conservation of wild salmon and their habitats the
 highest priority for resource management decision‐making. For policy
 implementation, a new approach to the assessment and management of Chinook
 salmon and the associated hatchery production and fisheries management are
 needed. Implementation of genetic stock identification (GSI) and
 parentage‐based tagging (PBT) for marine fisheries assessment may overcome
 problems associated with coded‐wire tag‐based (CWT) assessment and
 management of Chinook salmon fisheries, providing at a minimum information
 equivalent to that derived from the CWT program. GSI and PBT were used to
 identify Chinook salmon sampled in 2018 and 2019 marine fisheries (18,819
 individuals genotyped) in British Columbia to specific conservation units
 (CU), populations, and broodyears. Individuals were genotyped at 391
 single nucleotide polymorphisms via direct sequencing of amplicons. Very
 high accuracy of assignment to population and age (&gt;99.5%) via PBT
 was observed for 1994 Chinook salmon of ages 2–4 years, with a
 105,722–individual, 380–population baseline available for assignment.
 Application of a GSI‐PBT system of identification to individuals in 2019
 fisheries provided high‐resolution estimates of stock composition, catch,
 and exploitation rate by CU or population, with fishery exploitation rates
 directly comparable to those provided by CWTs for 13 populations. GSI and
 PBT provide an alternate, cheaper, and more effective method in the
 assessment and management of Canadian‐origin Chinook salmon relative to
 CWTs, and an opportunity for a genetics‐based system to replace the
 current CWT system for salmon assessment.
description: 2013-2019_Chinook_brood_rubias This is
 multi-locus genotype data for the Chinook brood collected in 2013-2019.
 These were sampled when they returned to the Hatchery. These are in Rubias
 format. The collection column describes the hatchery. The individual
 column lists individuals in the format &lt;stock
 code&gt;_&lt;brood year&gt;_&lt;fish
 number&gt;_&lt;sex&gt;.
 2018_Chinook_mixture_rubias This is
 multi-locus genotype data for the Chinook collected in 2018. These were
 samples taken in fisheries. These are in Rubias format. The collection
 column describes the mixture for each sample, with lookup reference in
 Table S4. The individual column lists individuals in the format
 &lt;analysis code&gt;_&lt;fishery year&gt;_&lt;julian
 catch date&gt;_&lt;fish number&gt;.
 2019_Chinook_mixture_rubias This is
 multi-locus genotype data for the Chinook collected in 2019. These were
 samples taken in fisheries. These are in Rubias format. The collection
 column describes the mixture for each sample, with lookup reference in
 Table S5. The individual column lists individuals in the format
 &lt;analysis code&gt;_&lt;fishery year&gt;_&lt;julian
 catch date&gt;_&lt;fish number&gt;.