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Dynamic metabolic flux analysis demonstrated on cultures where the limiting substrate is changed from carbon to nitrogen and vice versa

Gaspard Lequeux (UGent) , Joeri Beauprez (UGent) , Jo Maertens (UGent) , Ellen Van Horen (UGent) , Wim Soetaert (UGent) , Erick Vandamme (UGent) and Peter A Vanrolleghem
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Abstract
The main requirement for metabolic flux analysis (MFA) is that the cells are in a pseudo-steady state, that there is no accumulation or depletion of intracellular metabolites. In the past, the applications of MFA were limited to the analysis of continuous cultures. This contribution introduces the concept of dynamic MFA and extends MFA so that it is applicable to transient cultures. Time series of concentration measurements are transformed into flux values. This transformation involves differentiation, which typically increases the noisiness of the data. Therefore, a noise-reducing step is needed. In this work, polynomial smoothing was used. As a test case, dynamic MFA is applied on Escherichia coli cultivations shifting from carbon limitation to nitrogen limitation and vice versa. After switching the limiting substrate from N to C, a lag phase was observed accompanied with an increase in maintenance energy requirement. This lag phase did not occur in the C-to N-limitation case.
Keywords
GROWTH, BALANCE, EXPRESSION, WILD-TYPE, AMMONIUM TOXICITY, GLUTAMINE-SYNTHETASE, ESCHERICHIA-COLI, BIOCHEMICAL REACTION SYSTEMS, IDENTIFICATION, LINEAR CONSTRAINT RELATIONS

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Chicago
Lequeux, Gaspard, Joeri Beauprez, Jo Maertens, Ellen Van Horen, Wim Soetaert, Erick Vandamme, and Peter A Vanrolleghem. 2010. “Dynamic Metabolic Flux Analysis Demonstrated on Cultures Where the Limiting Substrate Is Changed from Carbon to Nitrogen and Vice Versa.” Journal of Biomedicine and Biotechnology.
APA
Lequeux, Gaspard, Beauprez, J., Maertens, J., Van Horen, E., Soetaert, W., Vandamme, E., & Vanrolleghem, P. A. (2010). Dynamic metabolic flux analysis demonstrated on cultures where the limiting substrate is changed from carbon to nitrogen and vice versa. JOURNAL OF BIOMEDICINE AND BIOTECHNOLOGY.
Vancouver
1.
Lequeux G, Beauprez J, Maertens J, Van Horen E, Soetaert W, Vandamme E, et al. Dynamic metabolic flux analysis demonstrated on cultures where the limiting substrate is changed from carbon to nitrogen and vice versa. JOURNAL OF BIOMEDICINE AND BIOTECHNOLOGY. 2010;
MLA
Lequeux, Gaspard, Joeri Beauprez, Jo Maertens, et al. “Dynamic Metabolic Flux Analysis Demonstrated on Cultures Where the Limiting Substrate Is Changed from Carbon to Nitrogen and Vice Versa.” JOURNAL OF BIOMEDICINE AND BIOTECHNOLOGY (2010): n. pag. Print.
@article{1106346,
  abstract     = {The main requirement for metabolic flux analysis (MFA) is that the cells are in a pseudo-steady state, that there is no accumulation or depletion of intracellular metabolites. In the past, the applications of MFA were limited to the analysis of continuous cultures. This contribution introduces the concept of dynamic MFA and extends MFA so that it is applicable to transient cultures. Time series of concentration measurements are transformed into flux values. This transformation involves differentiation, which typically increases the noisiness of the data. Therefore, a noise-reducing step is needed. In this work, polynomial smoothing was used. As a test case, dynamic MFA is applied on Escherichia coli cultivations shifting from carbon limitation to nitrogen limitation and vice versa. After switching the limiting substrate from N to C, a lag phase was observed accompanied with an increase in maintenance energy requirement. This lag phase did not occur in the C-to N-limitation case.},
  articleno    = {621645},
  author       = {Lequeux, Gaspard and Beauprez, Joeri and Maertens, Jo and Van Horen, Ellen and Soetaert, Wim and Vandamme, Erick and Vanrolleghem, Peter A},
  issn         = {1110-7243},
  journal      = {JOURNAL OF BIOMEDICINE AND BIOTECHNOLOGY},
  language     = {eng},
  pages        = {19},
  title        = {Dynamic metabolic flux analysis demonstrated on cultures where the limiting substrate is changed from carbon to nitrogen and vice versa},
  url          = {http://dx.doi.org/10.1155/2010/621645},
  year         = {2010},
}

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