Application of a GT-seq SNP panel to quantify interannual variation in mixed-stock composition in the largest commercial fishery for Arctic Charr (<em>Salvelinus alpinus</em>) in Canada

Aquatic resources are central to the global food supply and economy, particularly in the Arctic, where Inuit communities have long depended on wild resources. In the 1960s, the community of Iqaluktuuttiaq (Cambridge Bay, Nunavut, Canada) established commercial fisheries targeting Arctic Char (Salvelinus alpinus, L.), providing key employment and income. In a rapidly changing Arctic, molecular tools can enhance sustainable fisheries management. We applied a GT-seq (Genotyping-in-Thousands) panel of 377 SNP loci to distinguish five local stocks (Ekalluk, Halokvik, Jayko, Lauchlan, and Surrey) and quantify their contributions to annual harvests. A total of 1387 samples collected from four commercial sites over eight years (2012–2020) were analyzed to assess temporal variation in stock composition. Results revealed unequal stock contributions, with Ekalluk and Halokvik comprising over 75 % of catches. Spring harvests showed stable stock composition across years, while fall harvests exhibite..., , # Data from: Application of a GT-seq SNP panel to quantify interannual variation in mixed-stock composition in the largest commercial fishery for Arctic Charr (*Salvelinus alpinus*) in Canada Dataset DOI: [10.5061/dryad.np5hqc07g](https://doi.org/10.5061/dryad.np5hqc07g) ## Description of the data and file structure This README describes the datasets and file structure associated with the genetic analyses. #### Folder: GTseq_saal_all_samples_brut.zip **Description:** This folder contains the raw data obtained from the four GT-seq sequencing runs. Below is a description of the variables in each file. *Files: AlleleReads_haplotypes.txt and AlleleReads_singleSNPs.txt* * Sample names * Locus/Haplotype *File: GTscore_individualSummary.txt* * Sample: sample IDs * Total Reads: total number of reads analyzed * Off-target Reads: reads that do not correspond to an expected GT-seq locus * Primer Only Reads: reads containing only the primer sequence(s), with no usable information from the ..., ,