Fig. 4.

Bacterial global gene expression analysis uncovers infection-specific metabolic adaptations. (A) Four-way Venn diagram illustrating Yersinia transcripts, which are significantly altered (log2fc ≥ 1; log2fc ≤ −1; adjusted P value ≤ 0.05) during Peyer’s patch colonization (in vivo); 283 transcripts were altered in abundance in vivo compared with all four tested in vitro conditions, including those that were enriched under one condition and depleted under another condition. From those 283 transcripts, 116 were consistently enriched, and 62 were consistently depleted in vivo. E25, exponential phase 25 °C; E37, exponential phase 37 °C; in vivo, infected Peyer’s patches; S25, stationary phase 25 °C; S37, stationary phase 37 °C. (B) Heat map of selected bacterial transcripts related to metabolic functions that are strictly enriched (red) or depleted (blue) during infection. Values represent the log2 fold change between indicated conditions. (C) Central carbon metabolism of Y. pseudotuberculosis. Significant changes of the transcriptomic pattern between the in vitro- and in vivo-grown bacteria are indicated. Enriched transcripts during infection are given in red, and decreased transcripts are indicated in blue.