Bidirectionality and Compartmentation of Metabolic Fluxes Are Revealed in the Dynamics of Isotopomer Networks

International Journal of Molecular Sciences

David W. Schryer¹  Pearu Peterson¹  Toomas Paalme² 

[1] Laboratory of Systems Biology, Institute of Cybernetics, Tallinn University of Technology, Akadeemia 21, 12618 Tallinn, Estonia; E-Mails:;Department of Food Processing, Tallinn University of Technology, Ehitajate 5, 19086 Tallinn, Estonia; E-Mail:

关键词: Metabolic network;    isotopomer dynamics;    MFA;    mathematical modeling;    compartmentalization;    ¹³C NMR;   

DOI  :  10.3390/ijms10041697

来源: mdpi

【 摘 要 】

Isotope labeling is one of the few methods of revealing the in vivo bidirectionality and compartmentalization of metabolic fluxes within metabolic networks. We argue that a shift from steady state to dynamic isotopomer analysis is required to deal with these cellular complexities and provide a review of dynamic studies of compartmentalized energy fluxes in eukaryotic cells including cardiac muscle, plants, and astrocytes. Knowledge of complex metabolic behaviour on a molecular level is prerequisite for the intelligent design of genetically modified organisms able to realize their potential of revolutionizing food, energy, and pharmaceutical production. We describe techniques to explore the bidirectionality and compartmentalization of metabolic fluxes using information contained in the isotopic transient, and discuss the integration of kinetic models with MFA. The flux parameters of an example metabolic network were optimized to examine the compartmentalization of metabolites and and the bidirectionality of fluxes in the TCA cycle of Saccharomyces uvarum for steady-state respiratory growth.

【 授权许可】

CC BY   
© 2009 by the authors; licensee Molecular Diversity Preservation International, Basel, Switzerland.