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Data from: Genome-wide analysis reveals associations between climate and regional patterns of adaptive divergence and dispersal in American pikas

Citation

Schmidt, Danielle; Waterhouse, Matthew; Sjodin, Bryson; Russello, Michael (2021), Data from: Genome-wide analysis reveals associations between climate and regional patterns of adaptive divergence and dispersal in American pikas, Dryad, Dataset, https://doi.org/10.5061/dryad.w0vt4b8s7

Abstract

Understanding the role of adaptation in species responses to climate change is important for evaluating the evolutionary potential of populations and informing conservation efforts. Population genomics provides a useful approach for identifying putative signatures of selection and the underlying environmental factors or biological processes that may be involved. Here, we employed a population genomic approach within a space-for-time study design to investigate the genetic basis of local adaptation and reconstruct patterns of movement across rapidly changing environments in a thermally-sensitive mammal, the American pika (Ochotona princeps). Using genotypic data at 49,074 single nucleotide polymorphisms (SNPs), we analyzed patterns of genome-wide diversity, structure, and migration along three independent elevational transects located at the northern extent (Tweedsmuir South Provincial Park, British Columbia, Canada) and core (North Cascades National Park, Washington, USA) of the Cascades lineage. We identified 899 robust outlier SNPs within- and among-transects. Of those annotated to genes with known function, many were linked with cellular processes related to climate stress including ATP-binding, ATP citrate synthase activity, ATPase activity, hormone activity, metal ion-binding, and protein-binding. Moreover, we detected evidence for contrasting patterns of directional migration along transects across geographic regions that suggest an increased propensity for American pikas to disperse among lower elevation populations at higher latitudes where environments are generally cooler. Ultimately, our data indicate that fine-scale demographic patterns and adaptive processes may vary among populations of American pikas, providing an important context for evaluating biotic responses to climate change in this species and other alpine-adapted mammals.

Usage Notes

pika_97ind_14pop_49074snp.vcf: genotypic data for 97 individuals from 14 sample sites at 49,074 SNPs generated via RADseq.

49074_populations.loci.fa: fasta file containing sequences for 49,074 loci.

pika_108ind_14pop+supp_5000snp.vcf: genotypic data for 108 individuals from 14 sample sites and 7 supplemental sites at 5,000 random neutral SNPs generated via RADseq.

Funding

Natural Sciences and Engineering Research Council of Canada