Test for relationship between recombination rate and number of nonsynonymous substitutions; response: nonsynonymous substitutions along the D. pseudoobscura+D. persimilis lineage.

A generalized linear mixed model with Poisson distribution used to compare nonsynonymous substitutions along the D. pseudoobscura+D. persimilis lineage per gene to recombination rates measured in the Flagstaff cross. Interval was included as a random effect to account for multiple genes per interval. For this analysis, the “neutral mutation rate” was set as the average pairwise D. lowei–D. persimilis divergence at 4-fold degenerate sites of unpreferred codons. An asterisk indicates significance at an α of 0.05.