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Metabolome analysis and metabolic simulation

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For many decades microorganisms have been used for industrial purposes; traditional fermentations such as brewing and production of food additives, aroma molecules, organic acids and pharmaceutical-like antibiotics or recombinant proteins are instances of the industrial microorganism utilization. Therefore, microorganism modeling and simulation have been required for engineering purposes, because of demands for design, optimization and quality control of large-scale fermentation plants. Modeling has recently become more highly developed, aided by the deciphering of microorganism genomes, the completion of metabolic databases, the development of analytical methodologies and improvements in the performance of computers. This paper reviews past and recent metabolic simulation of microorganisms, and also discusses the metabolome analytical techniques and the construction of large-scale microorganism models which are now being developed in our group.

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Authors and Affiliations

  1. Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, 997–0017, Japan

    Nobuyoshi Ishii, Tomoyoshi Soga, Takaaki Nishioka & Masaru Tomita

  2. Human Metabolome Technologies Inc, Tsuruoka, Yamagata, 997–0017, Japan

    Tomoyoshi Soga & Masaru Tomita

  3. Graduate School of Agricultural Sciences, Kyoto University, Kyoto, 606–8502, Japan

    Takaaki Nishioka

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  1. Nobuyoshi Ishii
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  2. Tomoyoshi Soga
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  3. Takaaki Nishioka
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  4. Masaru Tomita
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Correspondence to Masaru Tomita.

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Ishii, N., Soga, T., Nishioka, T. et al. Metabolome analysis and metabolic simulation. Metabolomics 1, 29–37 (2005). https://doi.org/10.1007/s11306-005-1105-5

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