Transcriptional topography. (A) Profile of S.erythraea fermentation cycle according cell density. Time points sampled for RNA-seq across primary (red), transition (purple) and secondary (blue) metabolic phases are indicated. (B) Genome plot showing leading and lagging strand transcriptional bias. Outer circle shows histogram of transcription from sense (blue) and antisense (red) during the metabolic switch (51 hours). Inner-circle shows binned strand preference across sampled time points from the duplicate fermentation sequenced strand specifically after MicrobExpress enrichment. (C) Genome plot showing core to non-core transcriptional macro-regions after normalization. Outer circle (blue) normalised expression across sampled time points (outer circle represents the first time point (for clarity, the metabolic switch time point was excluded from the plot). Inner circle indicates binned enrichments for core/non-core regions, with switching of region enrichment observed at the switch. Four macro-regions annotated from superimposition of leading/lagging and core/noncore regions are indicated (red, blue, green and yellow). Numbered dots (1–5) indicate long inverted repeats. (D) Grid-plot indicates the enrichment for alternative functional gene categories in the four macro-regions in strand specific and core/non-core regions (only p < 0.05 indicated). A,B, C and D are the transcriptional macro regions observed in Figure 1C (red, blue, green and yellow).