title: Quantitative analysis of Escherichia coli metabolic phenotypes within the context of phenotypic phase planes.
abstract: In silico models of Escherichia coli metabolism have been developed to predict metabolic behavior and propose experimentally testable hypotheses. However, a thorough assessment of the metabolic phenotype requires well-designed experimentation and reproducible experimental techniques. A method for the quantitative analysis of E. coli metabolism in vivo within the framework of in silico phenotypic phase plane analysis is presented. Using this approach, we have quantitatively studied E. coli metabolism in various environmental conditions and nutritional media. Our experimental methodology, in combination with steady-state metabolic models, can be used to study biological properties and evaluate the metabolic capabilities of microbes.
authors.affiliation: Department of Bioengineering, University of California, San Diego, La Jolla, Calif., USA.
authors.forename: R U
authors.initials: RU
authors.lastname: Ibarra
authors.forename: P
authors.initials: P
authors.lastname: Fu
authors.forename: B O
authors.initials: BO
authors.lastname: Palsson
authors.forename: J R
authors.initials: JR
authors.lastname: DiTonno
authors.forename: J S
authors.initials: JS
authors.lastname: Edwards
mesh_terms: D000332:Aerobiosis; D000693:Anaerobiosis; D018533:Biomass; D019295:Computational Biology / Q000379:methods*; D003470:Culture Media; D004926:Escherichia coli / Q000235:genetics / Q000254:growth & development* / Q000378:metabolism*; D008954:Models, Biological; D010101:Oxygen Consumption; D010641:Phenotype; D019802:Succinic Acid / Q000378:metabolism
chemical_list: D003470:Culture Media; D019802:Succinic Acid