Data from: The population genomic signature of environmental selection in the widespread insect-pollinated tree species Frangula alnus at different geographical scales
De Kort, Hanne, KU Leuven
Vandepitte, Katrien, KU Leuven
Mergeay, Joachim, Research Institute for Nature and Forest
Mijnsbrugge, Kristine Vander, Research Institute for Nature and Forest
Honnay, Olivier, KU Leuven
Published Mar 31, 2015 on Dryad.
Cite this dataset
De Kort, Hanne et al. (2015). Data from: The population genomic signature of environmental selection in the widespread insect-pollinated tree species Frangula alnus at different geographical scales [Dataset]. Dryad. https://doi.org/10.5061/dryad.r12jk
The evaluation of the molecular signatures of selection in species lacking an available closely related reference genome remains challenging, yet it may provide valuable fundamental insights into the capacity of populations to respond to environmental cues. We screened 25 native populations of the tree species Frangula alnus subsp. alnus (Rhamnaceae), covering three different geographical scales, for 183 annotated single-nucleotide polymorphisms (SNPs). Standard population genomic outlier screens were combined with individual-based and multivariate landscape genomic approaches to examine the strength of selection relative to neutral processes in shaping genomic variation, and to identify the main environmental agents driving selection. Our results demonstrate a more distinct signature of selection with increasing geographical distance, as indicated by the proportion of SNPs (i) showing exceptional patterns of genetic diversity and differentiation (outliers) and (ii) associated with climate. Both temperature and precipitation have an important role as selective agents in shaping adaptive genomic differentiation in F. alnus subsp. alnus, although their relative importance differed among spatial scales. At the ‘intermediate’ and ‘regional’ scales, where limited genetic clustering and high population diversity were observed, some indications of natural selection may suggest a major role for gene flow in safeguarding adaptability. High genetic diversity at loci under selection in particular, indicated considerable adaptive potential, which may nevertheless be compromised by the combined effects of climate change and habitat fragmentation.
SNP sequences and GENALEX file
Sequences of the 250 SNPs (together with their functional annotations) are available in tab 1 of the file. In tab 2, the original GENALEX file on the 183 successfully genotyped SNPs is provided.