Payne2021 - Pseudomonas aeruginosa UCBPP-PA14 metabolic model

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Model Identifier
MODEL2205060001
Short description
Pseudomonas aeruginosa PA14 metabolic model
Format
SBML (L3V1)
Related Publication
  • An updated genome-scale metabolic network reconstruction of Pseudomonas aeruginosa PA14 to characterize mucin-driven shifts in bacterial metabolism.
  • Dawson Payne, Alina Renz, Dunphy LJ, Lewis T, Andreas Dräger, Papin JA
  • NPJ systems biology and applications , 10/ 2021 , Volume 7 , Issue 1 , pages: 37 , PubMed ID: 34625561
  • Department of Biomedical Engineering, University of Virginia, Charlottesville, VA, USA.
  • Mucins are present in mucosal membranes throughout the body and play a key role in the microbe clearance and infection prevention. Understanding the metabolic responses of pathogens to mucins will further enable the development of protective approaches against infections. We update the genome-scale metabolic network reconstruction (GENRE) of one such pathogen, Pseudomonas aeruginosa PA14, through metabolic coverage expansion, format update, extensive annotation addition, and literature-based curation to produce iPau21. We then validate iPau21 through MEMOTE, growth rate, carbon source utilization, and gene essentiality testing to demonstrate its improved quality and predictive capabilities. We then integrate the GENRE with transcriptomic data in order to generate context-specific models of P. aeruginosa metabolism. The contextualized models recapitulated known phenotypes of unaltered growth and a differential utilization of fumarate metabolism, while also revealing an increased utilization of propionate metabolism upon MUC5B exposure. This work serves to validate iPau21 and demonstrate its utility for providing biological insights.
Contributors
Submitter of the first revision: Mohammad Mazharul Islam
Submitter of this revision: Mohammad Mazharul Islam

Metadata information


Curation status
Non-curated

Modelling approach(es)
Other

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Model files

iPau21.xml Pseudomonas aeruginosa PA14 metabolic model 6.16 MB Preview | Download

  • Model originally submitted by : Mohammad Mazharul Islam
  • Submitted: May 6, 2022 6:07:38 PM
  • Last Modified: May 6, 2022 6:07:38 PM
Revisions
  • Version: 1 public model Download this version
    • Submitted on: May 6, 2022 6:07:38 PM
    • Submitted by: Mohammad Mazharul Islam
    • With comment: Import of Payne2021 - Pseudomonas aeruginosa UCBPP-PA14 metabolic model