Fig. 3

Map of central metabolic pathways in R. toruloides BOT-A2. Pathways were reconstructed from genome and RNAseq data, using KEGG, SGD and BLASTp. The network includes glycolysis (pink), the pentose phosphate pathway (blue), the TCA cycle (pale yellow), lipid biosynthesis, triacylglycerol biosynthesis and β-oxidation (all different shades of green), as well as carotenoid biosynthesis (orange), the glyoxylate cycle (dark yellow), and specific transport processes. Results from differential gene expression analysis are displayed for all 4 conditions analysed, conditions are as follows: g2g1—differential gene expression during nitrogen starvation on glucose; x2x1—differential gene expression during nitrogen starvation on xylose; x1g1—differential gene expression during exponential growth on xylose compared to glucose; x2g2—differential gene expression during nitrogen-starvation on xylose compared to glucose. Compound abbreviations: G6P: D-glucose-6P, F6P: D-fructose-6P, FBP: D-fructose-1,6P2, DHAP: dihydroxyacetone phosphate, GL3P: glycerol-3P, GA3P: D-glyceraldehyde-3P, 1,3BPG: glycerate-1,3P2, G3P: glycerate-3P, G2P: glycerate-2P, PEP: phosphoenolpyruvate, OA: oxaloacetate, AKG: α-ketoglutarate, SucCoA: succinyl-CoA, Suc: succinate, Fum: fumarate, Mal: (S)-malate, AAL: acetaldehyde, AcCoA: acetyl-CoA, MaCoA: malonyl-CoA, GCL6P: D-glucono-1,5-lactone-6P, GC6P: D-gluconate-6P, Xyl: xylitol, Xu: D-xylulose, Ru5P: D-ribulose-5P, R5P: D-ribose-5P, X5P: D-xylulose-5P, Arl: arabinitol, E4P: D-erythrose-4P, S7P: D-sedoheptulose-7P, Ac-[acp]: acetyl-[acp], Ma-[acp]: malonyl-[acp], AcetoAc-[acp]: acetoacetyl-[acp], (R)-3-HB-[acp]: (R)-3-hydroxybutanoyl-[acp], B-2-E-[acp]: but-2-enoyl-[acp], PA: phosphatidic acid, DAG: diacylglycerol, TAG: triacylglycerol. Gene name abbreviations are according to SGD or other oleaginous yeasts