Dynamic simulation and metabolic re-design of a branched pathway using linlog kinetics.

@article{Visser03, abstract = {This paper presents a new mathematical framework for modeling of in vivo dynamics and for metabolic re-design: the linlog approach. This approach is an extension of metabolic control analysis (MCA), valid for large changes of enzyme and metabolite levels. Furthermore, the presented framework combines MCA with kinetic modeling, thereby also combining the merits of both approaches. The linlog framework includes general expressions giving the steady-state fluxes and metabolite concentrations as a function of enzyme levels and extracellular concentrations, and a metabolic design equation that allows direct calculation of required enzyme levels for a desired steady state when control and response coefficients are available. Expressions giving control coefficients as a function of the enzyme levels are also derived. The validity of the linlog approximation in metabolic modeling is demonstrated by application of linlog kinetics to a branched pathway with moiety conservation, reversible reactions and allosteric interactions. Results show that the linlog approximation is able to describe the non-linear dynamics of this pathway very well for concentration changes up to a factor 20. Also the metabolic design equation was tested successfully.}, address = {PURAC, P.O. Box 21, 4200 AA Gorinchem, The Netherlands. d.visser@purac.com}, author = {Visser, D. and Heijnen, J. J. }, citeulike-article-id = {2931072}, issn = {1096-7176}, journal = {Metabolic engineering}, keywords = {kinetics, mca, modelling}, month = {July}, number = {3}, pages = {164--176}, posted-at = {2008-06-26 13:58:38}, priority = {2}, title = {Dynamic simulation and metabolic re-design of a branched pathway using linlog kinetics.}, url = {http://view.ncbi.nlm.nih.gov/pubmed/12948750}, volume = {5}, year = {2003} }

TY - JOUR ID - Visser03 L3 - citeulike-article-id:2931072 TI - Dynamic simulation and metabolic re-design of a branched pathway using linlog kinetics. JF - Metabolic engineering VL - 5 IS - 3 SP - 164 EP - 176 AD - PURAC, P.O. Box 21, 4200 AA Gorinchem, The Netherlands. d.visser@purac.com SN - 1096-7176 N2 - This paper presents a new mathematical framework for modeling of in vivo dynamics and for metabolic re-design: the linlog approach. This approach is an extension of metabolic control analysis (MCA), valid for large changes of enzyme and metabolite levels. Furthermore, the presented framework combines MCA with kinetic modeling, thereby also combining the merits of both approaches. The linlog framework includes general expressions giving the steady-state fluxes and metabolite concentrations as a function of enzyme levels and extracellular concentrations, and a metabolic design equation that allows direct calculation of required enzyme levels for a desired steady state when control and response coefficients are available. Expressions giving control coefficients as a function of the enzyme levels are also derived. The validity of the linlog approximation in metabolic modeling is demonstrated by application of linlog kinetics to a branched pathway with moiety conservation, reversible reactions and allosteric interactions. Results show that the linlog approximation is able to describe the non-linear dynamics of this pathway very well for concentration changes up to a factor 20. Also the metabolic design equation was tested successfully. KW - kinetics KW - mca KW - modelling AU - Visser, D AU - Heijnen, JJ PY - 2003/07// UR - http://view.ncbi.nlm.nih.gov/pubmed/12948750 ER -