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Flux Balance Analysis as an Alternative Method to Estimate Fluxes Without Labeling

  • Eva Grafahrend-Belau
  • Astrid Junker
  • Falk Schreiber
  • Björn H. Junker
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1090)

Abstract

The analysis of plant metabolic networks essentially contributes to the understanding of the efficiency of plant systems in terms of their biotechnological usage. Metabolic fluxes are determined by biochemical parameters such as metabolite concentrations as well as enzyme properties and activities, which in turn are the result of various regulatory events at various levels between control of transcription and posttranslational regulation of enzyme protein activity. Thus, knowledge about metabolic fluxes on a large scale provides an integrated view on the functional state of a metabolically active cell, organ, or system. In this chapter, we introduce flux balance analysis as a constraint-based method for the prediction of optimal metabolic fluxes in a given metabolic network. Furthermore, we provide a step-by-step protocol for metabolic network reconstruction and constraint-based analysis using the COBRA Toolbox.

Key words

Flux balance analysis Metabolic network reconstruction Matlab COBRA toolbox 

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Copyright information

© Springer Science+Business Media, New York 2014

Authors and Affiliations

  • Eva Grafahrend-Belau
    • 1
  • Astrid Junker
    • 1
  • Falk Schreiber
    • 1
    • 2
    • 3
  • Björn H. Junker
    • 4
  1. 1.Leibniz-Institute of Plant Genetics and Crop Plant Research Gatersleben (IPK)GaterslebenGermany
  2. 2.Institute of Computer ScienceMartin Luther University Halle-WittenbergHalleGermany
  3. 3.Clayton School of Information TechnologyMonash UniversityClaytonAustralia
  4. 4.Department of Physiology and Cell BiologyLeibniz Institute of Plant Genetics and Crop Plant Research (IPK)GaterslebenGermany

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