SNP dataset for cape race brook trout ...

• Main Authors: Jeon, Hyung-Bae, Yates, Matthew, Gallagher, Brian, Fraser, Dylan
• Format: Dataset
• Language: English
• Published: Dryad 2024
• Subjects: FOS: Biological sciences; Small population; local adaptation; Salvelinus fontinalis; Newfoundland
• Online Access: https://dx.doi.org/10.5061/dryad.31zcrjdvw; https://datadryad.org/stash/dataset/doi:10.5061/dryad.31zcrjdvw

Many studies have investigated the loss of adaptive potential in endangered or exploited species experiencing recent population declines. Less research has studied adaptive genomic variation in small populations known to have persisted for long periods, despite the unique contribution that such populations provide for determining mechanisms underlying population persistence in evolutionary and conservation modeling. Small populations of Brook trout (Salvelinus fontinalis) have persisted in Cape Race, Newfoundland for >12,000 years. We used genotyping-by-sequencing data to investigate the demographic history and adaptive genomic variation of 26 populations with effective population sizes (Ne) ranging from 11 to 442, and to explore mechanisms underlying long-term persistence. We show that all populations experienced demographic declines following postglacial colonization but have remained in their current, small Ne state for thousands of years. We also reveal greater homozygosity in adaptive alleles within ... : # SNP dataset for cape race brook trout ### Description of the Data and file structure There are datasets that were used to perform the analyses for this paper: 1\. CapeRace_NeutralSNPs.vcf Neutral SNPs from Cape Race Brook trout populations. 2.CapeRace_annotatedSNPs.vcf Annotated SNPs from Cape Race Brook trout populations. 3\. CapeRace_OutlierSNPs.vcf PCAdapt outlier SNPs from Cape Race Brook trout populations. All .vcf files can be viewed in a standard text editor. ...