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Comparison between elementary flux modes analysis and 13C-metabolic fluxes measured in bacterial and plant cells

hal.structure.identifierLaboratoire Bordelais de Recherche en Informatique [LaBRI]
dc.contributor.authorBEURTON-AIMAR, Marie
hal.structure.identifierBiologie du fruit et pathologie [BFP]
dc.contributor.authorBEAUVOIT, Bertrand
hal.structure.identifierBiologie du fruit et pathologie [BFP]
dc.contributor.authorMONIER, Antoine
hal.structure.identifierLaboratoire Bordelais de Recherche en Informatique [LaBRI]
dc.contributor.authorVALLEE, Francois
hal.structure.identifierBiologie du fruit et pathologie [BFP]
dc.contributor.authorDIEUAIDE-NOUBHANI, Martine
hal.structure.identifierBiologie du fruit et pathologie [BFP]
dc.contributor.authorCOLOMBIÉ, Sophie
dc.date.created2010-12-21
dc.date.issued2011-06-20
dc.identifier.issn1752-0509
dc.description.abstractEnBackground: 13C metabolic flux analysis is one of the pertinent ways to compare two or more physiological states. From a more theoretical standpoint, the structural properties of metabolic networks can be analysed to explore feasible metabolic behaviours and to define the boundaries of steady state flux distributions. Elementary flux mode analysis is one of the most efficient methods for performing this analysis. In this context, recent approaches have tended to compare experimental flux measurements with topological network analysis. Results: Metabolic networks describing the main pathways of central carbon metabolism were set up for a bacteria species (Corynebacterium glutamicum) and a plant species (Brassica napus) for which experimental flux maps were available. The structural properties of each network were then studied using the concept of elementary flux modes. To do this, coefficients of flux efficiency were calculated for each reaction within the networks by using selected sets of elementary flux modes. Then the relative differences - reflecting the change of substrate i.e. a sugar source for C. glutamicum and a nitrogen source for B. napus - of both flux efficiency and flux measured experimentally were compared. For both organisms, there is a clear relationship between these parameters, thus indicating that the network structure described by the elementary flux modes had captured a significant part of the metabolic activity in both biological systems. In B. napus, the extension of the elementary flux mode analysis to an enlarged metabolic network still resulted in a clear relationship between the change in the coefficients and that of the measured fluxes. Nevertheless, the limitations of the method to fit some particular fluxes are discussed. Conclusion: This consistency between EFM analysis and experimental flux measurements, validated on two metabolic systems allows us to conclude that elementary flux mode analysis could be a useful tool to complement 13C metabolic flux analysis, by allowing the prediction of changes in internal fluxes before carbon labelling experiments.
dc.language.isoen
dc.publisherBioMed Central
dc.subjectBIOLOGIE VEGETALE
dc.subjectFLUX METABOLIQUE 13C
dc.subjectANALYSE DE FLUX
dc.title.enComparison between elementary flux modes analysis and 13C-metabolic fluxes measured in bacterial and plant cells
dc.typeArticle de revue
dc.identifier.doi10.1186/1752-0509-5-95
dc.subject.halInformatique [cs]/Bio-informatique [q-bio.QM]
dc.subject.halSciences du Vivant [q-bio]/Bio-Informatique, Biologie Systémique [q-bio.QM]
bordeaux.journalBMC Systems Biology
bordeaux.page95
bordeaux.volume5
bordeaux.peerReviewedoui
hal.identifierhal-00629222
hal.version1
hal.popularnon
hal.audienceInternationale
hal.origin.linkhttps://hal.archives-ouvertes.fr//hal-00629222v1
bordeaux.COinSctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=BMC%20Systems%20Biology&rft.date=2011-06-20&rft.volume=5&rft.spage=95&rft.epage=95&rft.eissn=1752-0509&rft.issn=1752-0509&rft.au=BEURTON-AIMAR,%20Marie&BEAUVOIT,%20Bertrand&MONIER,%20Antoine&VALLEE,%20Francois&DIEUAIDE-NOUBHANI,%20Martine&rft.genre=article


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