Gautam2020-Metabolic network of Thermotoga sp. Strain RQ7

  public model
Model Identifier
MODEL2204110002
Short description
As in DOI: 10.1007/s12010-020-03470-z
Format
SBML (L3V1)
Related Publication
  • Construction and Validation of a Genome-Scale Metabolic Network of Thermotoga sp. Strain RQ7.
  • Gautam J, Zhaohui Xu
  • Applied biochemistry and biotechnology , 3/ 2021 , Volume 193 , Issue 3 , pages: 896-911 , DOI: 10.1007/s12010-020-03470-z
  • Department of Biological Sciences, Bowling Green State University, Bowling Green, OH, 43403, USA.
  • Thermotoga are anaerobic hyperthermophiles that have a deep lineage to the last universal ancestor and produce biological hydrogen gas accompanying cell growth. In recent years, systems-level approaches have been used to elucidate their metabolic capacities, by integrating mathematical modeling and experimental results. To assist biochemical engineering studies of T. sp. strain RQ7, this work aims at building a metabolic model of the bacterium that quantitatively simulates its metabolism at the genome scale. The constructed model, RQ7_iJG408, consists of 408 genes, 692 reactions, and 538 metabolites. Constraint-based flux balance analyses were used to simulate cell growth in both the complex and defined media. Quantitative comparison of the predicted and measured growth rates resulted in good agreements. This model serves as a foundation for an integrated biochemical description of T. sp. strain RQ7. It is a useful tool in designing growth media, identifying metabolic engineering strategies, and exploiting the physiological potentials of this biotechnologically significant organism.
Contributors
Submitter of the first revision: Zhaohui Xu
Submitter of this revision: Mikal Daou
Modellers: Mikal Daou, Zhaohui Xu

Metadata information

hasProperty
Mathematical Modelling Ontology Constraint-based model

Curation status
Non-curated

Modelling approach(es)

Tags

Connected external resources

SBGN view in Newt Editor

Name Description Size Actions

Model files

Gautam2020_RQ7_iJG408.xml Gautam2020_Metabolic network of Thermotoga sp. Strain RQ7 2.80 MB Preview | Download

Additional files

7b566f38-1eb2-49cd-b870-6a014d7cd922.omex Gautam2020_FROG 189.84 KB Preview | Download
Memote_Gautam.pdf Memote 1.11 MB Preview | Download
miniFROG Report_Gautam2020.xlsx Gautam2020_miniFROG 55.13 KB Preview | Download

  • Model originally submitted by : Zhaohui Xu
  • Submitted: Apr 11, 2022 6:26:59 PM
  • Last Modified: Jun 21, 2022 10:03:05 AM
Revisions
  • Version: 2 public model Download this version
    • Submitted on: Jun 21, 2022 10:03:05 AM
    • Submitted by: Mikal Daou
    • With comment: Model revised without commit message
  • Version: 1 public model Download this version
    • Submitted on: Apr 11, 2022 6:26:59 PM
    • Submitted by: Zhaohui Xu
    • With comment: Import of Gautam2020-Metabolic network of Thermotoga sp. Strain RQ7

(*) You might be seeing discontinuous revisions as only public revisions are displayed here. Any private revisions unpublished model revision of this model will only be shown to the submitter and their collaborators.