Extended Data Fig. 1: Differences in recombination rate and background selection are insufficient to explain the marked enrichment of high FST values among immune loci.
From: Evolution of immune genes is associated with the Black Death
Comparison of recombination rate (A) and background selection levels (B) between neutral loci and our candidate regions. Candidate regions were stratified into those which were tested and those which were candidates for positive selection based on high differentiation in London pre- vs post-BD. (C) Forward simulations matched for the rates of recombination and background selection of the regions targeted in our study show a slight enrichment of highly differentiated sites in candidate regions, but far from the level of enrichment observed in our collected data (D), replicated from Fig. 2a for comparison. For example, whereas our data differentiation at immune loci exceeded the 99th percentile of neutral variants at 4.3x the rate expected by chance, the same enrichment is less than 1.4x in the simulated data.
