FIG 1.

UPEC iron acquisition gene expression by E. coli strains during cystitis in women and culture in urine. Fresh urine samples from four women with uncomplicated E. coli UTI were stabilized immediately and processed for bacterial RNA (HM46, HM69, HM65, HM27). RNA transcript levels were quantified by RNA-seq and compared to transcript levels in the same strains during culture in normal human urine and LB. Differential transcript abundance between UTI urine samples or normal urine samples compared to LB for each gene is presented as the log₂-fold change (FC) and visualized on a heat map. Genes with more abundant RNA transcripts during cystitis or cultured growth in urine than in growth in LB are in darker red. Genes not present in the genome of the isolate are in white.