Article (Scientific journals)
A model of yeast glycolysis based on a consistent kinetic characterisation of all its enzymes
Smallbone, Kieran; Messiha, Hanan L.; Carroll, Kathleen M. et al.
2013In FEBS Letters, 587 (17), p. 2832-2841
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The final model, as available on the BioModels database. Other version also available form BioModels and from the JWS Online, where they can be simulated online at http://http://jjj.mib.ac.uk/
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The kinetic equations for all enzymes (supplementary data).
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Keywords :
Glycolysis; Systems biology; Enzyme kinetics; Isoenzyme; Modelling
Abstract :
[en] We present an experimental and computational pipeline for the generation of kinetic models of metabolism, and demonstrate its application to glycolysis in Saccharomyces cerevisiae. Starting from an approximate mathematical model, we employ a ‘‘cycle of knowledge’’ strategy, identifying the steps with most control over flux. Kinetic parameters of the individual isoenzymes within these steps are measured experimentally under a standardised set of conditions. Experimental strategies are applied to establish a set of in vivo concentrations for isoenzymes and metabolites. The data are integrated into a mathematical model that is used to predict a new set of metabolite concentrations and reevaluate the control properties of the system. This bottom-up modelling study reveals that control over the metabolic network most directly involved in yeast glycolysis is more widely distributed than previously thought.
Research center :
Manchester Centre for Integrative Systems Biology
Luxembourg Centre for Systems Biomedicine (LCSB): Experimental Neurobiology (Balling Group)
Disciplines :
Life sciences: Multidisciplinary, general & others
Author, co-author :
Smallbone, Kieran 
Messiha, Hanan L. 
Carroll, Kathleen M. 
Winder, Catherine L. 
Malys, Naglis 
Dunn, Warwick B.
Murabito, Ettore
Swainston, Neil
Dada, Joseph O.
Khan, Farid
Pir, Pinar
Simeonidis, Vangelis ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) ; University of Manchester > Manchester Centre for Integrative Systems Biology
Spasic, Irena
Wishart, Jill
Weichart, Dieter
Hayes, Neil W.
Jameson, Daniel
Broomhead, David S.
Oliver, Stephen G.
Gaskell, Simon J.
McCarthy, John E.G.
Paton, Norman W.
Westerhoff, Hans V.
Kell, Douglas B.
Mendes, Pedro
More authors (15 more) Less
 These authors have contributed equally to this work.
External co-authors :
yes
Language :
English
Title :
A model of yeast glycolysis based on a consistent kinetic characterisation of all its enzymes
Publication date :
02 September 2013
Journal title :
FEBS Letters
ISSN :
0014-5793
eISSN :
1873-3468
Publisher :
Elsevier Science, Amsterdam, Netherlands
Volume :
587
Issue :
17
Pages :
2832-2841
Peer reviewed :
Peer Reviewed verified by ORBi
Name of the research project :
The Manchester Centre for Integrative Systems Biology
Funders :
BBSRC / EPSRC
Available on ORBilu :
since 11 July 2013

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