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Fig. 5 | Algorithms for Molecular Biology

Fig. 5

From: Designing minimal microbial strains of desired functionality using a genetic algorithm

Fig. 5

Complex designs optimized by the GA. a, c and e show the complete set of EFMs of the M1, M2 and M3 models respectively and b, d and f represent corresponding solutions obtained using the GA which were obtained in 22, 28 min and 8 h, 48 min respectively. EFMs are represented as a function of ethanol and biomass production. Each circle represents a set of EFMs with the same yield and efficiency. The diameter of the circle reflects the number of EFMs represented. The colour of the EFMs indicates their efficiency as specified by the index on the right hand side of each graph. R_ETOHt2r, R_BIOt and R_GLCpts represent the ethanol secretion, biomass and glucose uptake reactions in the model. In b, the cutset corresponding to the solution is ({R_G6PDH2r R_FRD7 R_LDH_D R_ACt2r R_SUCCt3}), in d, the modes represented are the ones which survive after applying the cutset ({R_GND R_FUM R_ACt2r R_D_LACt2 R_SUCCt3}) and in f the cutset corresponding to the solution is ({R_GND R_SUCOAS R_MALS R_ACt2r R_D_LACt2}). In e and f R_norm = R_GLCpts + R_MAN1 + R_TRA8 + R_TRA9 + R_TRA10

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