The Escherichia coli MG1655 in silico metabolic genotype: its definition, characteristics, and capabilities.

TitleThe Escherichia coli MG1655 in silico metabolic genotype: its definition, characteristics, and capabilities.
Publication TypeJournal Article
Year of Publication2000
AuthorsEdwards JS, Palsson BØ
JournalProceedings of the National Academy of Sciences of the United States of America
Volume97
Issue10
Pagination5528-33
PubMed Date2000 May 9
ISSN0027-8424
KeywordsBacterial Proteins, Biomass, Chromosome Mapping, Enzymes, Escherichia coli, Genome, Bacterial, Genotype, Kinetics, Models, Biological, Models, Chemical
Abstract

The Escherichia coli MG1655 genome has been completely sequenced. The annotated sequence, biochemical information, and other information were used to reconstruct the E. coli metabolic map. The stoichiometric coefficients for each metabolic enzyme in the E. coli metabolic map were assembled to construct a genome-specific stoichiometric matrix. The E. coli stoichiometric matrix was used to define the system's characteristics and the capabilities of E. coli metabolism. The effects of gene deletions in the central metabolic pathways on the ability of the in silico metabolic network to support growth were assessed, and the in silico predictions were compared with experimental observations. It was shown that based on stoichiometric and capacity constraints the in silico analysis was able to qualitatively predict the growth potential of mutant strains in 86% of the cases examined. Herein, it is demonstrated that the synthesis of in silico metabolic genotypes based on genomic, biochemical, and strain-specific information is possible, and that systems analysis methods are available to analyze and interpret the metabolic phenotype.

Alternate JournalProc. Natl. Acad. Sci. U.S.A.
PubMed ID10805808

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