This effort describes the development of k-ecoli457 (k stands for kinetic, 457 is the total of reactions accounted for) a near genome-scale kinetic model of Escherichia coli (E. coli) metabolism. Model k-ecoli457 was parameterized using metabolic flux data for both wild-type E. coli and 25 mutant strains. These data managed to train the model to predict metabolic changes in response to genetic interventions. k-ecoli457 provides guidelines for developing predictive kinetic models at a genome-scale that can recapitulate the effect of multiple genetic interventions or growth mode changes. The approach described here provides a roadmap for developing a single model to predict with fidelity genetic and environmentally perturbed phenotypes. This could eventually be transformative in our ability to reliably design novel overproducing microbial strains.

Related Publications:

Khodayari A., Maranas C.D. (2016), "A genome-scale Escherichia coli kinetic metabolic model k-ecoli457 satisfying flux data for multiple mutant strains.", Nature Communications, 7, 13806. doi: 10.1038/ncomms13806. PMID: 27996047

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