Detail View - Data AccessID 90
General Information
Manuscript title | Metabolic network reconstruction, growth characterization and 13C-metabolic flux analysis of the extremophile Thermus thermophilus HB8 |
PubMed ID | 24909362 |
Journal | Metabolic Engineering |
Year | 2014 |
Authors | Aditi Swarup, Jimg Lu, Kathleen C. DeWoody, Maciek R. Antoniewicz |
Affiliations | Department of Chemical & Biomolecular Engineering, Metabolic Engineering and Systems Biology Laboratory, University of Delaware, Newark DE 19716, USA |
Keywords | Extremophile, Thermophilic bacterium, Optimal growth, Metabolic network model, Isotopic labeling |
Full text article | Swarup_2014.pdf |
Project name | not specified |
Experiment Description
Organism | Thermus thermophilus |
Strain | HB8 (ATCC 27634) |
Data type | flux measurements |
Data units | % substrate uptake |
Execution date | not specified |
Experimental Details
Temperature (°C) | 70 |
pH | 7.9 |
Carbon source | glucose |
Culture mode | batch |
Process condition | aerobic |
Dilution rate (h⁻¹) | — |
Working volume (L) | 0.01 |
Biomass concentration (g/L) | 0.39 (g/L)/OD600 cell dry weight and 25.3 g/C-mol for the molecular weight of dry biomass |
Medium composition | Glucose stock solutions were prepared at 20 wt% in distilled water. The optimized minimum medium contained (per liter of medium): 0.50 g K2HPO4, 0.30 g KH2PO4, 0.50 g NH4Cl, 0.50 g NaCl, 0.20 g MgCl2.6H2O, 0.04 g CaSO4.2H2O, 40 mL of 1 M Tris, 5 mL of Wolfe׳s minerals, and 5 mL of Wolfe׳s vitamins. |
General protocol information |
Flux analysis method:
13C constrained MFA Platform: GC-MS |
Methods description - Notes | 13C-Metabolic flux analysis - 13C –MFA was performed using the Metran software [1,2], which is based on the elementary metabolite units (EMU) framework [3,4]. Fluxes were estimated by minimizing the variance-weighted sum of squared residuals (SSR) between the experimentally ... ----------------References-----------------
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Administrator KiMoSysFirst name: Administrator
Affiliation: INESC-ID/IST
Homepage: http://kdbio.inesc-id.pt/kimosys
Interests: mathematical modeling, accessible data, use of data
Created: 2015-09-22 12:48:07 UTC
Updated: 2020-04-24 16:10:35 UTC
Version: 0
Status: (reviewed) 2015-09-22 13:06:46 UTC
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