Development of gene expression-metabolic model of Escherichia coli

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Cellular metabolism is regulated at transcription, translation, and enzymatic reactions. It is of interest how the metabolism is controlled at the multi-levels system. We measured transcriptome, metabolome, and metabolic fluxes for wild-type E. coli and the. arcA mutant under various conditions in continuous culture, and revealed the regulatory mechanism in each condition. Furthermore, the measured multi-omics data were integrated using the dynamic model and the model parameters were tuned. The arcA gene knockout condition was simulated based on the measured gene expressions. The simulated reaction rates were well matched with the^<13> C flux values. In this study, we demonstrated that the dynamic model has a potential as a platform for the integration of different levels omics data in order to reveal the intracellular regulatory mechanisms.