Metabolomic analysis of
Rid knockouts reveals widespread metabolic disturbances. Wild-type S. enterica and triple Rid KO (ridA Rid2 Rid7; DM14100), and for GC-MS also single RidA KO (ridA; DM3480), cultures were grown, harvested, and analyzed as described in Methods. (A) HILIC-TOF-MS identified dihydoorotate as having a significant 10.5-fold change in the triple KO. Part of the pyrimidine metabolic pathway is shown (see Figure 5 for abbreviations) with bars indicating the relative amount of dihydroorotate in each sample. (B) Venn diagrams summarize the significant (P < 0.05; t test) -fold changes (KO/wild-type) for GC-TOF-MS identified and unknown peaks. (C) GC-TOF-MS identified compounds with significant -fold changes found in one or both knockouts are listed in order of -fold change (for shared compounds, triple (T) or single (S) Rid KO is indicated) and colored yellow or green to indicate increased or decreased levels in the knockout, respectively. p-values are shown to the left of -fold changes. Colored bars adjacent to compound names mark intermediates of metabolic pathways shown in the legend. Data represent six (A, LC-MS) or twelve (B and C, GC-MS) independent cultures for each treatment.