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General Information
Manuscript title Metabolome, transcriptome and metabolic flux analysis of arabinose fermentation by engineered Saccharomyces cerevisiae
PubMed ID 20816840
Journal Metabolic Engineering
Year 2010
Authors H. Wouter Wisselink, Chiara Cipollina, Bart Oud, BarbaraCrimi, Joseph J. Heijnen, Jack T. Pronk, Antonius J.A.van Maris
Affiliations Department of Biotechnology, Delft University of Technology, Julianalaan 67, 2628 BC Delft, The Netherlands.
Keywords Saccharomyces cerevisiae, Evolutionary engineering, Arabinose, Transcriptomics, Metabolomics, Metabolic flux ana
Full text article Wisselink_2010.pdf
Project name not specified


Experiment Description
Organism Saccharomyces cerevisiae
Strain IMS0001 and IMS0002
Data type metabolites at steady-state
Data units mmol/[gDW]
Execution date not specified


Experimental Details
Temperature (°C) 30
pH 5.0
Carbon source glucose and arabinose
Culture mode chemostat
Process condition anaerobic
Dilution rate (h⁻¹) 0.03
Working volume (L) 1.0
Biomass concentration (g/L) Biomass yield (g g−1) = 0.066±0.001 (IMS0001, Glucose), 0.072±0.003 (IMS0002, Glucose) and 0.075±0.001 (IMS0002, Arabinose)
Medium composition

Cultures were performed in MY supplemented with 0.01 g l−1 ergosterol and 0.42 g l−1 Tween 80 dissolved in ethanol, silicon antifoam, vitamin solution and trace elements [5], and 20 g l−1 glucose (MYG) or arabinose (MYA).
General protocol information Sampling method: Sampling and sample preparation for analysis of intracellular metabolite concentrations was carried out as previously described in [1].

Quenching procedure: 1 ml of broth was rapidly quenched in 5 ml of −40 °C 60% (vol/vol) aqueous methanol. After centrifugation (2000g, −20 °C, 5 min), the pellet was resuspended in 5 ml of −40 °C 60% (vol/vol) aqueous methanol and centrifuged again.

Extraction technique: boiling ethanol

Sample analyzing method: GC-MS, LC-ESI-MS
Methods description - Notes

All data were obtained by LC-MS/MS analysis ,except for GAP and DHAP which were measured by GC–MS [2]. Concentrations of G6P, F6P, T6P, G1P, F1,6BP, PYR, 2,3PG, PEP and the TCA cycle intermediates FUM, SUC, MAL, OXG and CIT in the cell extracts were analyzed by liquid chrom ...

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Submission and curation

Entered by: Administrator KiMoSysFirst name: Administrator
Affiliation: INESC-ID/IST
Homepage: http://kdbio.inesc-id.pt/kimosys
Interests: mathematical modeling, accessible data, use of data

Created: 2018-08-27 21:00:50 UTC

Updated: 2020-04-24 16:10:37 UTC

Version: 2

Status: (reviewed) 2018-08-27 21:05:37 UTC

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Downloads: 46



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