Large Scale Dynamic Model Reconstruction for the Central Carbon Metabolism of Escherichia coli

Authors:
Rafael S. Costa;Daniel Machado;Isabel Rocha;Eugénio C. Ferreira
Affiliations:
IBB-Institute for Biotechnology and Bioengineering, Centre of Biological Engineering, University of Minho, Braga, Portugal P-4710-057;IBB-Institute for Biotechnology and Bioengineering, Centre of Biological Engineering, University of Minho, Braga, Portugal P-4710-057;IBB-Institute for Biotechnology and Bioengineering, Centre of Biological Engineering, University of Minho, Braga, Portugal P-4710-057;IBB-Institute for Biotechnology and Bioengineering, Centre of Biological Engineering, University of Minho, Braga, Portugal P-4710-057
Venue:
IWANN '09 Proceedings of the 10th International Work-Conference on Artificial Neural Networks: Part II: Distributed Computing, Artificial Intelligence, Bioinformatics, Soft Computing, and Ambient Assisted Living
Year:
2009

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Abstract

The major objective of metabolic engineering is the construction of industrially relevant microbial strains with desired properties. From an engineering perspective, dynamic mathematical modeling to quantitatively assess intracellular metabolism and predict the complex behavior of living cells is one of the most successful tools to achieve that goal. In this work, we present an expansion of the original E. coli dynamic model [1], which links the acetate metabolism and tricarboxylic acid cycle (TCA) with the phosphotransferase systems, the pentose-phosphate pathway and the glycolysis system based on mechanistic enzymatic rate equations. The kinetic information is collected from available database and literature, and is used as an initial guess for the global fitting. The results of the numeric simulations were in good agreement with the experimental results. Thus, the results are sufficiently good to prompt us to seek further experimental data for comparison with the simulations.