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Expanded flux variability analysis on metabolic network of Escherichia coli

  • Articles / Biophysics
  • Published:
Chinese Science Bulletin

Abstract

Flux balance analysis, based on the mass conservation law in a cellular organism, has been extensively employed to study the interplay between structures and functions of cellular metabolic networks. Consequently, the phenotypes of the metabolism can be well elucidated. In this paper, we introduce the Expanded Flux Variability Analysis (EFVA) to characterize the intrinsic nature of metabolic reactions, such as flexibility, modularity and essentiality, by exploring the trend of the range, the maximum and the minimum flux of reactions. We took the metabolic network of Escherichia coli as an example and analyzed the variability of reaction fluxes under different growth rate constraints. The average variability of all reactions decreases dramatically when the growth rate increases. Consider the noise effect on the metabolic system, we thus argue that the microorganism may practically grow under a suboptimal state. Besides, under the EFVA framework, the reactions are easily to be grouped into catabolic and anabolic groups. And the anabolic groups can be further assigned to specific biomass constitute. We also discovered the growth rate dependent essentiality of reactions.

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Authors and Affiliations

  1. Center for Theoretical Biology and School of Physics, Peking University, Beijing, 100871, China

    Tong Chen, ZhengWei Xie & Qi Ouyang

  2. Department of Physics, Hong Kong Baptist University, Kowloon Tong, Hong Kong, China

    Qi Ouyang

Authors
  1. Tong Chen
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  2. ZhengWei Xie
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  3. Qi Ouyang
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Corresponding author

Correspondence to Qi Ouyang.

Additional information

Supported by the National Natural Science Foundation of China (Grant No. 10721403), National Basic Research Program of China (Grant Nos. 2006CB910706, 2007CB814800, 2009CB918500), Chun-Tsung endowment at Peking University and National Fund for Fostering Talents of Basic Science (Grant No. J0630311)

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Chen, T., Xie, Z. & Ouyang, Q. Expanded flux variability analysis on metabolic network of Escherichia coli . Chin. Sci. Bull. 54, 2610–2619 (2009). https://doi.org/10.1007/s11434-009-0341-x

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  • DOI: https://doi.org/10.1007/s11434-009-0341-x

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