Figure 5.

Knockout strain versus process reactant production grid for flexFBA and biomass reaction FBA (small grids at top), and expanded to show detail for flexFBA. Strains included are those experimentally categorized as essential in glucose minimal (gene) or glucose minimal and additionally rich media (gene bolded) by Feist et al. [24]. Simulations completed in glucose minimal in silico media. Production immediately following perturbation given by shading (dark indicating metabolite absence), steady state limit result is outline. Experimental evidence associated with colored key for prediction correctness is in Table S1, categorized as follows: `Auxotrophs' are associated with direct literature reference to the knockout strain requiring the absent metabolites, precursors from which they can be synthesized, or some combination; `Likely Auxotrophs' are associated consistent but indirect literature reference to the knockout strain requiring the absent metabolites or precursors from which they can be synthesized; `Other Agreement' indicates that the absent metabolites are entirely consistent with literature documentation of the gene product, but cannot be transported from the media to supplement an auxotrophy; `Partial Agreement' indicates that literature references are consistent with some of the missing metabolites, but some either are or fail to be produced in conflict with literature evidence; `Incorrect' predictions are those for which detailed metabolite production is largely inconsistent with literature biochemical evidence. The knockouts in Figure 4 provide additional orientation to the information presented.