Genome-scale metabolic modelling approach to understand the metabolism of the opportunistic human pathogen Staphylococcus epidermidis RP62A

Díaz Calvo, Teresa, Tejera, Noemi, Mcnamara, Iain, Langridge, Gemma C., Wain, John, Poolman, Mark and Singh, Dipali (2022) Genome-scale metabolic modelling approach to understand the metabolism of the opportunistic human pathogen Staphylococcus epidermidis RP62A. Metabolites, 12 (2). ISSN 2218-1989

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Abstract

Staphylococcus epidermidis is a common commensal of collagen-rich regions of the body, such as the skin, but also represents a threat to patients with medical implants (joints and heart), and to preterm babies. Far less studied than Staphylococcus aureus, the mechanisms behind this increasingly recognised pathogenicity are yet to be fully understood. Improving our knowledge of the metabolic processes that allow S. epidermidis to colonise different body sites is key to defining its pathogenic potential. Thus, we have constructed a fully curated, genome-scale metabolic model for S. epidermidis RP62A, and investigated its metabolic properties with a focus on substrate auxotrophies and its utilisation for energy and biomass production. Our results show that, although glucose is available in the medium, only a small portion of it enters the glycolytic pathways, whils most is utilised for the production of biofilm, storage and the structural components of biomass. Amino acids, proline, valine, alanine, glutamate and arginine, are preferred sources of energy and biomass production. In contrast to previous studies, we have shown that this strain has no real substrate auxotrophies, although removal of proline from the media has the highest impact on the model and the experimental growth characteristics. Further study is needed to determine the significance of proline, an abundant amino acid in collagen, in S. epidermidis colonisation.

Item Type: Article
Additional Information: The genome-scale metabolic model (in ScrumPy and SBML format) along with python scripts (version 3.0 and above) used in this study is available, on request, from https://gitlab.com/singhdi/staphylococcus-epidermidis-rp62a GSM has also been deposited to the BioModels repository www.ebi.ac.uk/biomodels/ T.D.C. is funded by Norwich and Norfolk University Hospitals NHS Foundation Trust through grant 42933000H ‘Understanding biofilm formation on medical implants’. This work was partly funded by The University of East Anglia and The Orthopaedic Research Charitable Trust Fund. I.M. is funded by The Orthopaedic Research Charitable Trust Fund. N.T., G.C.L., J.W., M.P., and D.S. gratefully acknowledge the support of the Biotechnology and Biological Sciences Research Council (BBSRC) through the BBSRC Institute Strategic Programme Microbes in the Food Chain BB/R012504/1.
Faculty \ School: Faculty of Medicine and Health Sciences > Norwich Medical School
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Depositing User: LivePure Connector
Date Deposited: 17 Feb 2022 09:30
Last Modified: 13 Mar 2022 01:20
URI: https://ueaeprints.uea.ac.uk/id/eprint/83545
DOI: 10.3390/metabo12020136

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