Fig. 7: Genes specifically controlled by the cytoplasmic phosphate level.

A, B Venn diagrams giving the number of differentially regulated genes that are found in common in pairwise comparisons of cells with severely (ΔpstS; PhoB present) or moderately (ΔphoB) depleted cytoplasmic phosphate pools against cells with high cytoplasmic phosphate levels (WT, WT^pitA, ΔpstS^pitA or WT, WT^pitA, ΔphoB^pitA). Black frames indicate the genes that are significantly regulated in all comparisons shown. The strains analyzed are: ΔpstS (JK158), ΔphoB (JK2), WT (CB15N), WT^pitA (MAB257), ΔpstS^pitA (MAB259), ΔphoB^pitA (MAB258). C Core cytoplasmic phosphate regulon, obtained by comparison of the two gene sets defined in (A) and (B). The red frame indicates the genes that are robustly regulated by changes in the cytoplasmic phosphate concentration, independently of the absence/presence of PhoB. D Clustering analysis comparing the expression levels of the 88 genes in the core cytoplasmic phosphate regulon. White color represents the average transcript level of each gene among the tested condition. Red and blue color indicates an increase or decrease, respectively, in the transcript levels compared to the average. Normalized logCPM values were used in each case, leading to a fixed range of values for all genes. S1 and S2 indicate the two replicates analyzed for each strain.