This paper examines whether the in vivo behavior of yeast glycolysis can be understood in terms of the in vitro kinetic properties of the constituent enzymes. In nongrowing, anaerobic, compressed Saccharomyces cerevisiae the values of the kinetic parameters of most glycolytic enzymes were determined. For the other enzymes appropriate literature values were collected. By inserting these values into a kinetic model for glycolysis, fluxes and metabolites were calculated. Under the same conditions fluxes and metabolite levels were measured. In our first model, branch reactions were ignored. This model failed to reach the stable steady state that was observed in the experimental flux measurements. Introduction of branches towards trehalose, glycogen, glycerol and succinate did allow such a steady state. The predictions of this branched model were compared with the empirical behavior. Half of the enzymes matched their predicted flux in vivo within a factor of 2. For the other enzymes it was calculated what deviation between in vivo and in vitro kinetic characteristics could explain the discrepancy between in vitro rate and in vivo flux.
SEEK ID: https://testing.sysmo-db.org/publications/11
PubMed ID: 10951190
Projects: SysMO DB
Publication type: Not specified
Journal: Eur. J. Biochem.
Citation:
Date Published: 22nd Aug 2000
Registered Mode: Not specified
Authors: Firstname Lastname, J Passarge, C A Reijenga, E Esgalhado, C C van der Weijden, M Schepper, M C Walsh, B M Bakker, K van Dam, H V Westerhoff, Firstname Lastname
Export PNG

Views: 2011
Created: 9th Jul 2010 at 08:16
Last updated: 24th Mar 2022 at 10:39

None
Related items
Projects: PSYSMO, MOSES, SysMOLAB, SulfoSys, SysMO DB
Institutions: Manchester Centre for Integrative Systems Biology, University of Manchester, University of Stellenbosch, HITS gGmbH
Projects: SysMO DB, Virtual Liver Network Developers
Institutions: School of Computer Science, University of Manchester, HITS gGmbH
Expertise: Biochemistry, Bioinformatics, Data Management
Tools: Data Management, Transcriptomics, Databases, Workflows, Web services, Taverna, Ontologies
I am a Research Fellow at the University of Manchester, working in Bioinformatics and Computer Science. I am also a guest researcher at the Vrije Universiteit.My research interests include scientific workflows, semantic discovery, and applying ontology technologies to biological data
The main objectives of SysMO-DB are to: facilitate the web-based exchange of data between research groups within- and inter- consortia, and to provide an integrated platform for the dissemination of the results of the SysMO projects to the scientific community. We aim to devise a progressive and scalable solution to the data management needs of the SysMO initiative, that:
- maximises the ‘shelf life’ and utility of data generated by SysMO;
- provides an integrated platform for the dissemination ...
Programme: Dummy programme
Public web page: http://www.sysmo-db.org/
Organisms: Lactic Acid Bacteria, Agapornis
Assay to measure gene expression of yeast saccharomyces cerevisiae under different nutrient limitations
Limiting Nutrients: ethanol, nitrogen, glucose, phosphorus, carbon, sulfur, sulphur
This data is public data taken from the BioInvestigation Index.
(http://www.ebi.ac.uk/bioinvindex/study.seam?studyId=BII-S-1)
Submitter: Katy Wolstencroft
Assay type: Transcriptional Profiling
Technology type: Microarray
Investigation: Growth control of the eukaryote cell: a systems...
Study: 1 hidden item
Organisms: Callimico goeldii
SOPs: COGEME_extraction_mod-chemostat_v1
Data files: a_transcriptome from BII-S-1
Snapshots: No snapshots
Submitter: Stuart Owen
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: inv1
Study: study1
Organisms: No organisms
SOPs: COGEME_extraction_mod-chemostat_v1
Data files: Glycerol Synthesis dummy validation data, dummy datafile, test plot data
Snapshots: No snapshots
Submitter: Quyen Yamanaka
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: 1 hidden item
Study: 1 hidden item
Organisms: No organisms
SOPs: pdf inline view
Data files: Testing adding by URL
Snapshots: No snapshots
This is the description
Creators: Jacky Snoep, John Smith, Jane Smith
Submitter: Jacky Snoep
Investigations: 1 hidden item
Studies: 1 hidden item
Assays: 1 hidden item
Creator: Stuart Owen
Submitter: Stuart Owen
Creator: Stuart Owen
Submitter: Stuart Owen
Investigations: inv1
Studies: study1 and 1 hidden item
Assays: Testing assay for project browser thingy and 1 hidden item
just testing some rdf related stuff
Creators: Stuart Owen, Carole Goble, Lei Toledo
Submitter: Stuart Owen
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Results of transcriptional profile in saccharomyces cerevisiae under different experimental conditions
Creator: Katy Wolstencroft
Submitter: Katy Wolstencroft
Investigations: Growth control of the eukaryote cell: a systems..., Methods for interrelating 'omics data, inv1
Studies: Metabolomics data capture and 2 hidden items
Assays: Changes in flux on the transcriptome, Excel template for metabolomics data and 1 hidden item
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
ttt
Creator: Stuart Owen
Submitter: Stuart Owen
Investigations: Methods for interrelating 'omics data, inv1 and 1 hidden item
Studies: Metabolomics data capture, study1, test quyen study
Assays: Excel template for metabolomics data, Testing assay for project browser thingy and 1 hidden item
Creator: Jacky Snoep
Submitter: Guest
Model type: Ordinary differential equations (ODE)
Model format: SBML
Environment: Not specified
Organism: Callimico goeldii
Investigations: Growth control of the eukaryote cell: a systems...
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Not specified
Model format: SBML
Environment: Not specified
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Assays: No Assays