Fig. 2.

Clonal group variation and Fim-like recombinase prevalence by isolate source and syndrome. (a) Phylogenetic associations among commensal and pathogenic isolates. The percentage of isolates in each of the four clonal groups is shown. Clonal groups were assigned based on a previously published multiplex PCR for chuA, yjaA, and genomic fragment TSPE4.C2 (Clermont et al., 2000; Gordon et al., 2008). ECOR strain clonal groups were determined previously (Johnson et al., 2001) and are in accordance with our experimental results. CY, cystitis; PY, pyelonephritis; UTI-BL, urosepsis. (b) The percentage of isolates that encode one of four recombinase profiles observed, grouped as follows: fimB-E only (similar to MG1655); fimB-E-X only (similar to UTI89); fimB-E ipuA-B (rarely observed); and all five recombinases present, fimB-E-X ipuA-B (similar to CFT073). Two human commensal isolate and one ASB isolate were excluded from analysis as they did not carry the fimB gene by PCR analysis.