Figure 3

Elementary modes and constrained minimal cut sets in the RN model. (A) Phenotypic phase plane depicting the specific biomass and ethanol yields of the EMs (day conditions). Each blue circle corresponds to one or several EMs. (B) For cMCSs calculation, EMs from (A) are classified as target and desired EMs by specifying thresholds for minimum desired biomass and product yield. Red circles represent target modes (Y _{ethanol/photon}≤ 0.03) and green circles desired modes (Y _{ethanol/photon}>0.03 and Y _{biomass/photon}≥0.0001). Blue circles indicate modes that are neither target nor desired modes. (C) Distribution of the cardinalities of cMCSs calculated from the intervention problem posed in (B) (see also Figure 5). (D) Phenotypic phase plane with the remaining EMs of the mutant resulting from a knockout of all reactions contained in cMCS-1 in Figure 5.