Fig. 6

Changes in transcript levels during adaptation to the respiratory condition. Cells were grown in glucose (YES) media to early exponential phase (time point 0), when the carbon source was changed to glycerol. Transcript levels were monitored by microarrays at multiple time points after the switch (0.2, 0.5, 1, 2, 4 and 24 h). a Venn diagrams of genes differentially expressed more than twofold at any time point relative to time 0 after shift to glycerol, genes differentially expressed more than twofold in the RNA-seq experiment, and CESR genes. b Transcript profiles in response to the shift to glycerol. Expression levels relative to expression at time point 0. Transcripts for stress- and growth-related CESR genes are highlighted in red and blue, respectively. c Number of genes up- or down-regulated more than twofold across the time points. Differentially regulated genes encoding proteins localised to mitochondria (GO: mitochondrion) are highlighted, with significant P values for their enrichment among up-regulated genes indicated. d Transcripts were grouped into 12 clusters (Additional file 2: Figure S11). Average expression profiles for eight of these clusters are shown, along with representative enriched GO categories (see Additional file 1: Table S3 for all enriched GO categories). e Genes involved in pyruvate metabolism were repressed after the shift to glycerol, while isoforms of some of these genes (enolase, pyruvate decarboxylase and alcohol dehydrogenase) became induced. Plots depict expression profiles of relevant genes as indicated, along with corresponding pathways for context