Computational Tools for Strain Optimization by Adding Reactions
This paper introduces a new plug-in for the OptFlux Metabolic Engineering platform, aimed at finding suitable sets of reactions to add to the genomes of microbes (wild type strain), as well as finding complementary sets of deletions, so that the mutant becomes able to overproduce compounds with industrial interest, while preserving their viability. The optimization methods used are Evolutionary Algorithms and Simulated Annealing. The usefulness of this plug-in is demonstrated by a case study, regarding the production of vanillin by the bacterium E. coli.
KeywordsSimulated Annealing Metabolic Network Flux Balance Analysis Metabolic Flux Analysis System Biology Markup Language
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