Unfiltered VCF for pink salmon rapid adaptation

Introduced and invasive species make excellent natural experiments for investigating rapid evolution. Here, we describe the effects of genetic drift and rapid genetic adaptation in pink salmon (Oncorhynchus gorbuscha) that were accidentally introduced to the Great Lakes via a single introduction event 31-generations ago. Using whole-genome resequencing for 134 fish spanning five sample groups across the native and introduced range, we estimate that the source population’s effective population size was 146,886 at the time of introduction, whereas the founding population’s effective population size was just 72—a 2040-fold decrease. As expected with a severe founder event, we show reductions in genome-wide measures of genetic diversity, specifically a 37.7% reduction in the number of SNPs and an 8.2% reduction in observed heterozygosity. Despite this decline in genetic diversity, we provide evidence for putative selection at 47 loci across multiple chromosomes in the introduced population..., This VCF file contains whole-genome resequence data with SNPs called from GATK best practices. This file has been filtered for GATK flagged SNPs but otherwise is unfiltered (to allow users to filter how they choose or to follow manuscript methods). Please see manuscript for additional details. Computational methods can be viewed at https://github.com/morgan-sparks/Pink-Salmon-Rapid-Evolution and are archived on Zenodo (DOI: 10.5281/zenodo.8239589).,