Extended Data Fig. 6: RNA-seq-identified Salmonella gene regulation.
From: Microbes exploit death-induced nutrient release by gut epithelial cells
a, Schematic for Salmonella RNA-seq. Volcano plots of differentially expressed Salmonella genes. CT26:FADD (left) or HCT116 (UV) treatment (right). n = 4. Table of up and downregulated genes identified in the RNA-seq experiments described in Fig. 2 and the predicted functions and fold changes of the eight Salmonella genes conserved between the two independent RNA-seq experiments. Venn diagram of differentially regulated Salmonella genes in the two different RNA-seq experiments and the list of eight regulated genes shared between the two datasets. b, Salmonella cadB expression. n = 3 per condition. c, CFU of wild-type or ΔcadBA mutant Salmonella (CJA042) after 9 h of aerobic growth. n = 4 per condition. d, E. coli strain HS gene expression. n = 6 (stauro) and n = 3 (UV). e, CFU of wild-type or ΔpflB mutant Salmonella (CJA071) after 9 h of aerobic growth. n = 4 per condition., f, Formate concentrations in supernatants derived from live (QVD treated), staurosportine-treated, UV-irradiated, or freeze–thaw CT26 cells. n = 4 per condition. g, CT26 cell death, as measured by flow cytometry. n = 3 per condition. h, Salmonella pflB gene expression. n = 4 per condition. Box plots are as in Fig. 1. Data are mean ± s.e.m. ns, P > 0.05. *P ≤ 0.05, **P ≤ 0.005, ***P ≤ 0.0005, one-way (b, f, h) or two-way (c, e) ANOVA with Tukey’s multiple comparisons test
