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We describe the construction and analysis of a genome-scale metabolic model of Arabidopsis (Arabidopsis thaliana) primarily derived from the annotations in the Aracyc database. We used techniques based on linear programming to demonstrate the following: (1) that the model is capable of producing biomass components (amino acids, nucleotides, lipid, starch, and cellulose) in the proportions observed experimentally in a heterotrophic suspension culture; (2) that approximately only 15% of the available reactions are needed for this purpose and that the size of this network is comparable to estimates of minimal network size for other organisms; (3) that reactions may be grouped according to the changes in flux resulting from a hypothetical stimulus (in this case demand for ATP) and that this allows the identification of potential metabolic modules; and (4) that total ATP demand for growth and maintenance can be inferred and that this is consistent with previous estimates in prokaryotes and yeast.

Original publication

DOI

10.1104/pp.109.141267

Type

Journal article

Journal

Plant Physiol

Publication Date

11/2009

Volume

151

Pages

1570 - 1581

Keywords

Adenosine Triphosphate, Arabidopsis, Biomass, Cells, Cultured, Genome, Plant, Metabolic Networks and Pathways, Metabolome, Models, Biological