Figure 3: Regulon treemap of growing B. subtilis.

(a) Gene expression of growing B. subtilis compared with average expression during the time course in cells entering the stationary phase. (b) Relative protein amount determined in cytosolic fraction of growing B. subtilis compared with the average protein amount during the investigated time course. Each cell in the graph displays a single gene locus that belongs to other hierarchically/regulatory related elements in parent convex-shaped categories. These are again summarized in higher-level regulatory categories. Functionally related elements seem in close neighbourhood to each other. Treemap design is based on hierarchically structured regulatory data (black borders: regulon/thin black borders within the regulons: operon/smallest cells: gene). +/-; depict regulons being induced (+) or repressed (-;) depending on the regulator assigned to the area. To visualize differences in expression level/protein amount compared with the average level colour coding was applied as following: blue—decreased level (dec.), grey—same level as average (avg.), orange—increased level (inc.). These figures are part of the time course analysis (Supplementary Movies S2 and S4), monitoring the changes from exponential growth to late stationary phase.