ArticleMolecular systems biology2007
A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information.
Article in Molecular systems biology, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 627 papers.
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627 citing papers in PubMed.
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- Demand-only energetics at 120 ATP per glucose: A reply to Lynch.Biochimica et biophysica acta. Bioenergetics · 2026Article
- Dynamic metabolic modelling of ATP allocation during viral infection.Journal of the Royal Society, Interface · 2026Article
- The EcoCyc database (2025).EcoSal Plus · 2025Review
- Rare metabolic gene essentiality is a determinant of microniche adaptation in Eschherichia coli.PLoS pathogens · 2025Article
- A compact model of Escherichia coli core and biosynthetic metabolism.PLoS computational biology · 2025Article
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- ThermOptCobra: Thermodynamically optimal construction and analysis of metabolic networks for reliable phenotype predictions.iScience · 2025Article
- Co-consumption for plastics upcycling: A perspective.Metabolic engineering communications · 2025Article
- Designing pathways for bioproducing complex chemicals by combining tools for pathway extraction and ranking.Nature communications · 2025Article
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9 authors.
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Abstract
An updated genome-scale reconstruction of the metabolic network in Escherichia coli K-12 MG1655 is presented. This updated metabolic reconstruction includes: (1) an alignment with the latest genome annotation and the metabolic content of EcoCyc leading to the inclusion of the activities of 1260 ORFs, (2) characterization and quantification of the biomass components and maintenance requirements associated with growth of E. coli and (3) thermodynamic information for the included chemical reactions. The conversion of this metabolic network reconstruction into an in silico model is detailed. A new step in the metabolic reconstruction process, termed thermodynamic consistency analysis, is introduced, in which reactions were checked for consistency with thermodynamic reversibility estimates. Applications demonstrating the capabilities of the genome-scale metabolic model to predict high-throughput experimental growth and gene deletion phenotypic screens are presented. The increased scope and computational capability using this new reconstruction is expected to broaden the spectrum of both basic biology and applied systems biology studies of E. coli metabolism.
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