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Optimization of productivity and thermodynamic performance of metabolic pathways / Mian Xu in Industrial & engineering chemistry research, Vol. 47 n°15 (Août 2008) 

Public ISBD [article]  in Industrial & engineering chemistry research > Vol. 47 n°15 (Août 2008) . - p. 5669–5679 Titre : Optimization of productivity and thermodynamic performance of metabolic pathways Type de document : texte imprimé Auteurs : Mian Xu, Auteur ; Robin Smith, Auteur ; Jhuma Sadhukhan, Auteur Année de publication : 2008 Article en page(s) : p. 5669–5679 Note générale : Bibliogr. p. 5679 Langues : Anglais (eng) Mots-clés : Cellular  metabolic  systems;  Pathway  analysis;  Flux  balance  analysis;  Gibbs  free  energy Résumé : In this contribution, a novel optimization strategy has been presented that combines the metabolic flux analysis and pathway identification with the thermodynamic analysis of cellular metabolic systems. First, an optimal metabolic flux distribution among elementary pathways is identified by LP optimization subject to constraints on flux balance analysis, pathway analysis, and negative Gibbs free energy change for pathways, for achieving the maximum yield of products. The Gibbs free energy change for pathways is calculated from the new transformed Gibbs free energy of formation of external metabolites and cofactors that are in stoichiometric balance in metabolic pathways. The consideration of thermodynamic constraints on pathways ensures the selection of feasible pathways. Thereafter, the Gibbs free energy change of pathways is minimized to predict the optimal reaction conditions that facilitate such pathways. Thus, the optimization approach derives the optimal pathway distribution and conditions for the best performance of cellular systems. The effectiveness of the methodology is demonstrated by a case study on the optimization of pentose phosphate pathway (PPP) and the glycolysis cycle of the insilico Escherichia coli. En ligne : http://pubs.acs.org/doi/abs/10.1021/ie070352f [article] Optimization of productivity and thermodynamic performance of metabolic pathways [texte imprimé] / Mian Xu, Auteur ; Robin Smith, Auteur ; Jhuma Sadhukhan, Auteur . - 2008 . - p. 5669–5679. Bibliogr. p. 5679 Langues : Anglais (eng) in Industrial & engineering chemistry research > Vol. 47 n°15 (Août 2008) . - p. 5669–5679 Mots-clés : Cellular  metabolic  systems;  Pathway  analysis;  Flux  balance  analysis;  Gibbs  free  energy Résumé : In this contribution, a novel optimization strategy has been presented that combines the metabolic flux analysis and pathway identification with the thermodynamic analysis of cellular metabolic systems. First, an optimal metabolic flux distribution among elementary pathways is identified by LP optimization subject to constraints on flux balance analysis, pathway analysis, and negative Gibbs free energy change for pathways, for achieving the maximum yield of products. The Gibbs free energy change for pathways is calculated from the new transformed Gibbs free energy of formation of external metabolites and cofactors that are in stoichiometric balance in metabolic pathways. The consideration of thermodynamic constraints on pathways ensures the selection of feasible pathways. Thereafter, the Gibbs free energy change of pathways is minimized to predict the optimal reaction conditions that facilitate such pathways. Thus, the optimization approach derives the optimal pathway distribution and conditions for the best performance of cellular systems. The effectiveness of the methodology is demonstrated by a case study on the optimization of pentose phosphate pathway (PPP) and the glycolysis cycle of the insilico Escherichia coli. En ligne : http://pubs.acs.org/doi/abs/10.1021/ie070352f