Data from: Experimental evidence of genome-wide impact of ecological selection during early stages of speciation-with-gene-flow

Theory predicts that speciation-with-gene-flow is more likely when the
consequences of selection for population divergence transitions from
mainly direct effects of selection acting on individual genes to a
collective property of all selected genes in the genome. Thus,
understanding the direct impacts of ecologically based selection, as well
as the indirect effects due to correlations among loci, is critical to
understanding speciation. Here, we measure the genome-wide impacts of
host-associated selection between hawthorn and apple host races of
Rhagoletis pomonella (Diptera: Tephritidae), a model for contemporary
speciation-with-gene-flow. Allele frequency shifts of 32 455 SNPs induced
in a selection experiment based on host phenology were genome wide and
highly concordant with genetic divergence between co-occurring apple and
hawthorn flies in nature. This striking genome-wide similarity between
experimental and natural populations of R. pomonella underscores the
importance of ecological selection at early stages of divergence and calls
for further integration of studies of eco-evolutionary dynamics and genome
divergence.