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General Information
Manuscript title Integration of in vivo and in silico metabolic fluxes for improvement of recombinant protein production.
PubMed ID 22115737
Journal Metabolic Engineering
Year 2012
Authors Habib Driouch, Guido Melzer, Christoph Wittmann
Affiliations Institute of Biochemical Engineering, Technische Universitat Braunschweig, Gaussstrasse 17, Braunschweig, Germany
Keywords Aspergillus niger, 13C metabolic flux, fructofuranosidase
Full text article Driouch_2012.pdf
Project name not specified


Experiment Description
Organism Aspergillus niger
Strain SKANip8 (W.T.) and SKAn1015
Data type flux measurements
Data units (mmol/gh)
Execution date not specified


Experimental Details
Temperature (°C) 37.0
pH 5.0
Carbon source glucose,
Culture mode batch
Process condition aerobic
Dilution rate (h⁻¹)
Working volume (L) 0.025
Biomass concentration (g/L) not specified
Medium composition

Medium contained per litre: 15 g glucose, 20 mL salt solution (50× with 180 g/L NaNO3, 10 g/L KCI, 30 g/L KH2PO4, 10 g/L MgSO4.7H2O) and 1 mL trace element solution (1000× with 10 g/L EDTA, 4.4 g/L ZnSO4·7H2O, 1.5 g/L MnCl2.4H2O, 0.32 g/L CuSO4.5H2O, 7.5 g/L FeSO4·7H2O, 0.32 g/L CoCl2·6H2O, 1.47 g/L CaCl2·2H2O and 0.22 g/L (NH4)6Mo7O24.4H2O). In 13C-labeling experiments, glucose was replaced by an equimolar amount of 13C-labeled glucose. To resolve the metabolic fluxes of interest two parallel set-ups were chosen for the labeling studies (Wittmann and Heinzle 2002). This included one set-up with [1-13C] glucose (99%, Cambridge Isotope Laboratories, Andover, USA) and one set-up with a 1:1 mixture of [13C6] glucose (99%, Cambridge Isotope Laboratories, Andover, USA) and naturally labeled glucose. See manuscript for more details.

General protocol information Flux analysis method: 13C constrained MFA

Platform: GC-MS

Methods description - Notes

Labeling analysis of proteinogenic amino acids by GC–MS - cells of A. niger were harvested during mid-exponential growth by filtration of 5mL culture broth through a cellulose acetatefilter (pore size 20 µm, Sartorius, Goettingen, Germany). After removal of excess medium by ...

-----------------References---------------
[1] Wittmann, C., Heinzle,E., 2002.Genealogy profiling through strain improvement using metabolic network analysis: metabolic flux genealogy of several generations of lysine-producing corynebacteria. Appl. Environ. Microbiol. 68, 5843–5859. http://doi.org/c3qcbr
[2] Kiefer, P., Heinzle,E., Zelder,O., Wittmann,C., 2004. Comparative metabolic flux analysis oflysine-producing Corynebacterium glutamicum cultured on glucose or fructose. Appl. Environ. Microbiol. 70, 229–239. http://doi.org/cg63zq
[3] Wittmann, C., 2007. Fluxome analysis using GC–MS. Microb. Cell Fact. 6, 6. http://doi.org/cfph95
[4] Andersen, M.R.,Nielsen,M.L.,Nielsen,J., 2008. Metabolic model integration of the bibliome, genome, metabolome and reactome of Aspergillus niger. Mol. Syst. Biol. 4, 178. http://doi.org/b3wcr4
[5] Jouhten, P., Pitkanen, E., Pakula,T., Saloheimo,M., Penttila, M., Maaheimo,H., 2009. 13C-metabolic flux ratio and novel carbon path analyses confirmed that Trichoderma reesei uses primarily the respirative pathway also on the preferred carbon source glucose. BMC Syst. Biol. 3, 104. http://doi.org/bc7zd6
[6] Meijer, S., Otero,J., Olivares,R., Andersen,M.R., Olsson, L., Nielsen, J., 2009. Overexpression of isocitrate lyase-glyoxylate by pass influence on metabolism in Aspergillus niger. Metab.Eng. 11, 107–116. http://doi.org/cn7bbd
[7] Melzer, G., Esfandabadi,M.E., Franco-Lara,E., Wittmann, C., 2009. Flux design: in silico design of cell factories based on correlation of pathway fluxes to desired properties. BMC. Syst. Biol. 3, 120. http://doi.org/cf9n8n
[8] Zamboni, N., Fischer,E., Sauer,E., 2005. FiatFlux — a software for metabolic flux analysis from13C-glucose experiments. BMC Bioinform. 6, 209. http://doi.org/bj2zk2

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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: 2013-06-22 14:35:53 UTC

Updated: 2020-04-24 16:10:34 UTC

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Status: (reviewed) 2013-12-06 17:17:38 UTC

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