テクニカルレポート Analyses of metabolic system dynamics for time series data of small samples
Analyses of metabolic system dynamics for time series data of small samples

Daisuke, Tominaga  ,  Hideo, Kawaguchi  ,  Yoshimi, Hori  ,  Tomohisa, Hasunuma  ,  Chiaki, Ogino  ,  Sachiyo, Aburatani

2017-BIO-49 ( 7 )  , pp.1 - 5 , 2017-03-16
ISSN:2188-8590
NII書誌ID(NCID):AA12055912
内容記述
Measuring concentrations of metabolites and estimating reaction rates of each reaction step consisting of metabolic pathways are significant for the improvement of microorganisms such as production maximization of materials. Although the reaction pathway must be identified for improvement, that is not easy. Numerous reaction steps have been reported, but the actually activated reaction steps vary or change according to conditions. Furthermore, reaction mechanisms and parameter values must be known to build mathematical models for dynamical analysis, but sufficient information has not been published for many cases to date. In addition, experimental observations are expensive. A new mathematical approach that is applicable to small sample data and which requires no detailed information of reactions is strongly needed. The S-system is one such model that can use smaller samples than other ODE models can. We propose a simplified S-system to apply minimal quantities of samples for dynamic analysis of metabolic pathways. We applied the model to the phenyl-lactate production pathway of Escherichia coli. The obtained model suggests that actually activated reaction steps and feedback inhibitions in the pathway.
Measuring concentrations of metabolites and estimating reaction rates of each reaction step consisting of metabolic pathways are significant for the improvement of microorganisms such as production maximization of materials. Although the reaction pathway must be identified for improvement, that is not easy. Numerous reaction steps have been reported, but the actually activated reaction steps vary or change according to conditions. Furthermore, reaction mechanisms and parameter values must be known to build mathematical models for dynamical analysis, but sufficient information has not been published for many cases to date. In addition, experimental observations are expensive. A new mathematical approach that is applicable to small sample data and which requires no detailed information of reactions is strongly needed. The S-system is one such model that can use smaller samples than other ODE models can. We propose a simplified S-system to apply minimal quantities of samples for dynamic analysis of metabolic pathways. We applied the model to the phenyl-lactate production pathway of Escherichia coli. The obtained model suggests that actually activated reaction steps and feedback inhibitions in the pathway.

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