13C Metabolic Flux Analysis of Bacillus subtilis 168 in continuous high-salinity culture
- 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
SEEK ID: https://fairdomhub.org/assays/138
Modelling Analysis
Projects: BaCell-SysMO
Investigation: Multiomics study of Bacillus subtilis under osmotic stress
Study: Fluxome analysis of Bacillus subtilis 168 under osmotic stress
Biological problem addressed: Metabolic Network
Organisms: No organisms
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Created: 12th Apr 2011 at 13:32
Last updated: 8th Nov 2017 at 15:21
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Projects: BaCell-SysMO
Institutions: University of Braunschweig
BaCell-SysMO 2
Modelling carbon core metabolism in Bacillus subtilis – Exploring the contribution of protein complexes in core carbon and nitrogen metabolism.
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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Programme: SysMO
Public web page: http://www.sysmo.net/index.php?index=53
High salinity chemostat cultivation, multiomics sampling (proteome, transcriptome, metabolome, fluxome) and modelling of carbon core metabolism of Bacillus subtilis 168.
Snapshots: No snapshots
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
...
Person responsible: Michael Kohlstedt
Snapshots: No snapshots
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
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
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
