Heterogeneous recombination rates within and between prevalent gut species.

(A–C) Analogous versions of Fig 2C for 3 example species, which were chosen to illustrate a range of characteristic behaviors. Gray regions denote the points that were excluded by our filtering steps (Section 3 in S1 Text). (D) Apparent recombination rates (number of transfers/clonal divergence/core genome length) for all species with a sufficient number of closely related strains (Section 3.3 in S1 Text). For species with > 100 close pairs, we plot the average recombination rate at 4 characteristic divergence times (dc = 2.5,5,7,5,10×10−5, highlighted as points along the trend lines in panels A–C) using the trend lines in panels A–C; estimates are connected by lines to aid visualization. For species with https://doi.org/10.5281/zenodo.10304481.