Close relatives in population samples: Evaluation of the consequences for genetic stock identification ...

• Main Authors: Östergren, Johan, Palm, Stefan, Gilbey, John, Dannewitz, Johan
• Format: Dataset
• Language: English
• Published: Dryad 2020
• Subjects: Atlantic salmon; Salmo salar
• Online Access: https://dx.doi.org/10.5061/dryad.msbcc2ftw; https://datadryad.org/stash/dataset/doi:10.5061/dryad.msbcc2ftw

Determining the origin of individuals in mixed population samples is key in many ecological, conservation and management contexts. Genetic data can be analyzed using Genetic Stock Identification (GSI), where the origin of single individuals is determined using Individual Assignment (IA) and population proportions are estimated with Mixed Stock Analysis (MSA). In such analyses, allele frequencies in a reference baseline are required. Unknown individuals or mixture proportions are assigned to source populations based on the likelihood that their multilocus genotypes occur in a particular baseline sample. Representative sampling of populations included in a baseline is important when designing and performing GSI. Here we investigate the effects of family sampling on GSI, using both simulated and empirical genotypes for Atlantic salmon (Salmo salar). We show that non-representative sampling leading to inclusion of close relatives in a reference baseline may introduce bias in estimated proportions of contributing ... : Tissue samples collected from Atlantic salmon. Tissue samples consisted of fin clips from hatcheries stored individually in labeled tubes with ethanol (95%). DNA was extracted followed by PCR and genotyping of 17 polymorphic microsatellite markers (on average c. 10 alleles/locus). ...