Skip to main content
. 2015 Mar 16;112(13):4110–4115. doi: 10.1073/pnas.1419677112

Fig. 3.

Fig. 3.

Metabolite availability in CF sputum. (A) Metabolic reactions identified by KEGG Orthology are colored according to their relative mutant fitness in strain PAO1 grown in MOPS-sputum medium compared with growth in MOPS-succinate minimal medium. Only significant changes (fold change greater than or equal to two, P < 0.05) are shown. Example biosynthetic pathways for metabolites deemed “available” (green), “potentially available” (yellow), and “not available” (red) are colored (see below for details). (B) Full profile of metabolite availability in CF sputum (ordered arbitrarily). If mutants in >33% of genes predicted to be in the biosynthetic pathway of a given metabolite were more fit in MOPS-sputum than in MOPS-succinate (P < 0.05, negative binomial test, fold change greater than or equal to two) that metabolite was said to be “available” to P. aeruginosa in CF sputum. If 5–33% of genes predicted to be in the biosynthetic pathway of a given metabolite were more fit in MOPS-sputum than in MOPS-succinate, that metabolite was said to be “potentially available”. If <5% of genes predicted to be in the biosynthetic pathway of a given metabolite were more fit in MOPS-sputum than in MOPS-succinate, that metabolite was said to be “not available.” Genes predicted to be involved in biosynthesis of necessary metabolites were identified from the PseudoCyc database (see Dataset S7 for details).