Data from: Signatures of local adaptation along environmental gradients in a range-expanding damselfly (Ischnura elegans)

Insect distributions are shifting rapidly in response to climate change and are undergoing rapid evolutionary change. We investigate the molecular signatures underlying local adaptation in the range-expanding damselfly, Ischnura elegans. Using a landscape genomic approach combined with generalized dissimilarity modelling (GDM), we detect selection signatures on loci via allelic frequency change along environmental gradients. We analyse 13,612 Single Nucleotide Polymorphisms (SNPs), derived from Restriction site-Associated DNA sequencing (RADseq), in 426 individuals from 25 sites spanning the I. elegans distribution in Sweden, including its expanding northern range edge. Environmental association analysis (EAA) and the magnitude of allele frequency change along the range expansion gradient revealed significant signatures of selection in relation to high maximum summer temperature, high mean annual precipitation, and low wind speeds at the range edge. SNP annotations with significant signatures of selection revealed gene functions associated with ongoing range expansion, including heat shock proteins (HSP40 and HSP70), ion transport (V-ATPase) and visual processes (long wavelength-sensitive opsin), which have implications for thermal stress response, salinity tolerance and mate discrimination, respectively. We also identified environmental thresholds where climate-mediated selection is likely to be strong, and indicate that I. elegans is rapidly adapting to the climatic environment during its ongoing range expansion. Our findings empirically validate an integrative approach for detecting spatially explicit signatures of local adaptation along environmental gradients.

Ischnura elegans draft genome assembly Dec 2015: This is a draft assembly of the Ischnura elegans genome produced by Pallavi Chauhan, Bengt Hansson, et al. (unpublished). Production date was December, 2015. An updated and annotated reference genome for Ischnura elegans is scheduled to be available on NCBI in 2018.
Ischnura_elegans_draftgenome_assemblyDec2015.fasta

Completeness Report for I.elegans draft genome Dec 15: Completeness Report for I.elegans draft genome, Dec 2015
Ischnura_elegans_draftgenomeDec2015.output.completeness_report

Report for Ischnura_elegans_draftgenomeDec2015: Assembly summary data, coverage and statistics for I.elegans draft genome December 2015
Ischnura_elegans_draftgenomeDec2015.report

GDM R code for single SNP-based analysis: GDM R code for single SNP-based analysis - data formatting, modelling and output
GDM Upload 20180412.R

Environmental data:Environmental data for variables used in GDM and EAA
Upload1_EnvData.csv

SNP_datafile: Datafile for 13612 SNPs in genepop format, generated from Stacks 1.40.

PlinkMap_datafile: Plink .map datafile for 13612 SNPs

GDM_TotalmodelOutput_1758snps: Total model output for GDM of 1758 candidate SNPs

SNPannotations and GDM: SNP annotations for all candidate loci and GDM output for SNPs meeting criteria for presentation.
SNPannotations.xlsx

popmap: Popmap of population site IDs and sample IDs

Outlier_EAA_SNPs1758: List of SNP IDs for all uniquely identified SNPs from Fst Outlier (Bayescan and OutFlank) and Environmental Association Analysis (LFMM) tests.

This work is licensed under a CC0 1.0 Universal (CC0 1.0) Public Domain Dedication license.