Fluxome analysis of Bacillus subtilis 168 under osmotic stress
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3 chemostat experiments:
each in 4 biological replicates incl. 1 fed with labelled glucose T = 37°C pH = 7.1 V_R = 300 mL (dasgip parallel bioreactor system) V_G = 9 sL/h (0.5 vvm) M9 Minimal medium + 3,4-dihydroxybenzoate (chelating agent) + 1g/L Glucose n = 1000 rpm
3 conditions:
"reference" without additional sodium chloride as control "stress" supplemented with 1.2M sodium chloride "osmoprotection" supplemented with 1.2M sodium chloride and 1mM glycine betaine (osmoprotectant)
SEEK ID: https://fairdomhub.org/studies/69
Multiomics study of Bacillus subtilis under osmotic stress
Projects: BaCell-SysMO
Study position:
Experimentalists: Michael Kohlstedt, Claudia Korneli, Judith Becker
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Created: 12th Apr 2011 at 11:19
Last updated: 22nd Nov 2011 at 19:12
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Projects: BaCell-SysMO
Institutions: University of Braunschweig
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The goal pursued by SysMO was to record and describe the dynamic molecular processes going on in unicellular microorganisms in a comprehensive way and to present these processes in the form of computerized mathematical models.
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Bacillus subtilis is a prime model organism for systems biology approaches because it is one of the most advanced models for functional genomics. Furthermore, comprehensive information on cell and molecular biology, physiology and genetics is available and the European Bacillus community (BACELL) has a well-established reputation for applying ...
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High salinity chemostat cultivation, multiomics sampling (proteome, transcriptome, metabolome, fluxome) and modelling of carbon core metabolism of Bacillus subtilis 168.
Submitter: Sandra Maass
Studies: B. subtilis_SysMo2_Chemostat_growthrate-salt, Fluxome analysis of Bacillus subtilis 168 under osmotic stress
Assays: 13C Metabolic Flux Analysis of Bacillus subtilis 168 in continuous high-..., Absolute quantification of proteins by the AQUA-technology, Absolute quantification of proteins using QconCAT technology, Relative quantification of proteins by metabolic labeling, Transcriptome data for chemostat cultivated samples, extracellular metabolites, intracellular metabolites
- Comparison of metabolic flux distribution in carbon core metabolism (EMP, PPP, TCA) of Bacillus subtilis under 3 different conditions: "salt-free" reference, "stress" chemostat, "osmoprotected" chemostat.
- Model created using OpenFLUX and Microsoft Excel
- Model computed using MatLAB
Submitter: Michael Kohlstedt
Biological problem addressed: Metabolic Network
Investigation: Multiomics study of Bacillus subtilis under osm...
Excel sheet contains:
- flux distribution solution from best iteration cluster
- quality of the fit (experimental MIDs vs. simulated MIDs)
- Sensitivity analysis for 95% flux parameter confidence interval using a Monte-Carlo approach
Creator: Michael Kohlstedt
Submitter: Michael Kohlstedt
Excel sheet contains:
- flux distribution solution from best iteration cluster
- quality of the fit (experimental MIDs vs. simulated MIDs)
- Sensitivity analysis for 95% flux parameter confidence interval using a Monte-Carlo approach
Creator: Michael Kohlstedt
Submitter: Michael Kohlstedt
Excel sheet contains:
- flux distribution solution from best iteration cluster
- quality of the fit (experimental MIDs vs. simulated MIDs)
- Sensitivity analysis for 95% flux parameter confidence interval using a Monte-Carlo approach
Creator: Michael Kohlstedt
Submitter: Michael Kohlstedt
