Fundamentals of Systems Analysis and Modeling of Biosystems and Metabolism

Author(s): Kazuyuki Shimizu and Yu Matsuoka

DOI: 10.2174/9781681080864115010007

Kinetic Modeling for the Main Metabolic Pathways

Pp: 133-186 (54)

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Abstract

SHS investigation development is considered from the geographical and historical viewpoint. 3 stages are described. Within Stage 1 the work was carried out in the Department of the Institute of Chemical Physics in Chernogolovka where the scientific discovery had been made. At Stage 2 the interest to SHS arose in different cities and towns of the former USSR. Within Stage 3 SHS entered the international scene. Now SHS processes and products are being studied in more than 50 countries.

Abstract

Kinetic models for the main metabolic pathways such as glycolysis, TCA cycle, pentose phosphate pathway together with anaplerotic pathways and gluconeogenic pathways are explained. Kinetic models for substrate uptake pathways such as glucose PTS, glycerol uptake pathways, and xylose assimilating pathways are then explained. Kinetic models for the fermentation pathways under anaerobic condition are also explained. Moreover, kinetic models for amino acid synthetic pathways such as glutamic acid/ glutamine synthetic pathways and lysine synthetic pathways are explained. Unlike flux balance analysis based on the stoichiometric constraints, kinetic modeling approach based on enzymatic reactions for the metabolic pathways can be easily extended for the inclusion of enzyme level and transcriptional regulations, and the kinetic models can reasonably express the dynamics.

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