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General Information
Manuscript title Transcriptional regulation is insufficient to explain substrate-induced flux changes in Bacillus subtilis
PubMed ID 24281055
Journal Molecular Systems Biology
Year 2013
Authors Victor Chubukov, Markus Uhr, Ludovic Le Chat, Roelco J Kleijn, Matthieu Jules, Hannes Link, Stephane Aymerich, Joerg Stelling and Uwe Sauer
Affiliations Institute of Molecular System Biology, ETH Zurich, Zurich, Switzerland.
Keywords central carbon metabolism, metabolic flux, transcriptional regulation
Full text article Chubukov_2013.pdf
Project name not specified

Experiment Description
Organism Bacillus subtilis
Strain BSB168
Data type metabolites at steady-state
Data units mMol/L cell volume
Execution date not specified

Experimental Details
Temperature (°C) 37.0
Carbon source glucose, fructose, gluconate, succinate+glutamate, glycerol, malate, malate, malate+glucose, pyruvate
Culture mode batch
Process condition aerobic
Dilution rate (h⁻¹)
Working volume (L) 0.03
Biomass concentration (g/L) 3.0 g cells/OD600
Medium composition

M9 minimal medium (per liter): 8.5 g Na2HPO4·2H2O, 3 g KH2PO4, 1 g NH4Cl, 0.5 g NaCl. The following components were sterilized separately and then added (per liter of final medium): 1 ml 0.1 M CaCl2, 1 ml 1 M MgSO4, 1 ml 50 mM FeCl3 and 10 ml trace salts solution. The trace salts solution contained (per liter): 170 mg ZnCl2, 100 mg MnCl2·4H2O, 60.0 mg CoCl2·6H2O, 60.0 mg Na2MoO4·2H2O and 43.0 mg CuCl2·2H2O. Filter‐sterilized carbon sources were added separately to the medium, pH neutralized with 4 M NaOH where necessary.

General protocol information Sampling method: Sampling method: Two samples for intracellular metabolite quantification were taken within 5 min of each other from the shake flask cultures during exponential growth at an OD600 between 0.8 and 1.2.

Quenching procedure:

Extraction technique: hot ethanol

Sample analyzing method: HPLC-MS

Methods description - Notes

In all, 2 ml of culture was vacuum filtered on a 0.45‐μm pore size nitrocellulose filter (Millipore) and immediately washed with two volumes of fresh M9 medium containing the respective carbon source and adjusted to the pH of the culture at the time of sampling. Sampling was ...

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Entered by: Administrator KiMoSysFirst name: Administrator
Affiliation: INESC-ID/IST
Interests: mathematical modeling, accessible data, use of data

Created: 2015-05-05 16:47:23 UTC

Updated: 2020-04-24 16:10:35 UTC

Version: 3

Status: (reviewed) 2015-05-05 16:47:54 UTC

Views: 163

Downloads: 25

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