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Fig. S1. S. Typhimurium phoP bacteria overgrow in stromal cells positioned in the lamina propria of mouse intestinal villi negative for the smooth-muscle actin marker. Fig. S2. Multiple alignment of the UshA enzymes encoded by the genomes of Escherichia coli K-12 strain MG1655 and in S. Typhimurium strains LT2, SL1344, and 14028s. Table S1. Gene expression comparison between S. enterica serovar Typhimurium wild-type strain SV5015 (SL1344, His+) and the isogenic mutant MD1120 (phoP::Tn10,His+) under active growth conditions (LB-exponential phase). Table S2. Genome-wide expression of Salmonella enterica serovar Typhimurium inside fibroblasts. Table S3. S. Typhimurium genes differentially expressed (log2ratio ≤ -2 or ≥ 2) in intracellular WT bacteria compared to exponential LB bacteria. Table S4. S. Typhimurium genes significantly upregulated (log2M ≥ 2) in intracellular WT at 24 hpi inside fibroblasts. Table S5. S. Typhimurium genes significantly downregulated (log2M ≤ -2) in intracellular WT at 24 hpi inside fibroblasts. Table S6. S. Typhimurium genes differentially expressed (log2ratio ≤ -2 or ≥ 2) in extracellular WT bacteria in stationary phase compared to the intracellular WT. Table S7. S. Typhimurium genes differentially expressed (log2ratio ≤ -2 or ≥ 2) in the intracellular phoP mutant compared to the intracellular WT. Table S8. Plasmids and oligonucleotides used for chromosome epitope tagging.
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