Genome-Scale Metabolic Modelling Approach to Understand the Metabolism of the Opportunistic Human Pathogen <i>Staphylococcus epidermidis</i> RP62A
<i>Staphylococcus epidermidis</i> 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 <i>Staphylococcus aureus</i>, the me...
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| Format: | Article |
| Language: | English |
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MDPI AG
2022-02-01
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| Series: | Metabolites |
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| Online Access: | https://www.mdpi.com/2218-1989/12/2/136 |
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| author | Teresa Díaz Calvo Noemi Tejera Iain McNamara Gemma C. Langridge John Wain Mark Poolman Dipali Singh |
| author_facet | Teresa Díaz Calvo Noemi Tejera Iain McNamara Gemma C. Langridge John Wain Mark Poolman Dipali Singh |
| author_sort | Teresa Díaz Calvo |
| collection | DOAJ |
| description | <i>Staphylococcus epidermidis</i> 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 <i>Staphylococcus aureus</i>, the mechanisms behind this increasingly recognised pathogenicity are yet to be fully understood. Improving our knowledge of the metabolic processes that allow <i>S. epidermidis</i> to colonise different body sites is key to defining its pathogenic potential. Thus, we have constructed a fully curated, genome-scale metabolic model for <i>S. epidermidis</i> 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 <i>S. epidermidis</i> colonisation. |
| first_indexed | 2024-03-09T21:27:32Z |
| format | Article |
| id | doaj.art-6e18cd43ad6e45eebdf5f5522a06597d |
| institution | Directory Open Access Journal |
| issn | 2218-1989 |
| language | English |
| last_indexed | 2024-03-09T21:27:32Z |
| publishDate | 2022-02-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Metabolites |
| spelling | doaj.art-6e18cd43ad6e45eebdf5f5522a06597d2023-11-23T21:04:58ZengMDPI AGMetabolites2218-19892022-02-0112213610.3390/metabo12020136Genome-Scale Metabolic Modelling Approach to Understand the Metabolism of the Opportunistic Human Pathogen <i>Staphylococcus epidermidis</i> RP62ATeresa Díaz Calvo0Noemi Tejera1Iain McNamara2Gemma C. Langridge3John Wain4Mark Poolman5Dipali Singh6Quadram Institute Bioscience, Norwich Research Park, Norwich NR4 7UQ, UKMicrobes in the Food Chain, Quadram Institute Bioscience, Norwich Research Park, Norwich NR4 7UQ, UKNorwich Medical School, University of East Anglia, Norwich NR4 7UQ, UKMicrobes in the Food Chain, Quadram Institute Bioscience, Norwich Research Park, Norwich NR4 7UQ, UKMicrobes in the Food Chain, Quadram Institute Bioscience, Norwich Research Park, Norwich NR4 7UQ, UKCell System Modelling Group, Oxford Brookes University, Oxford OX3 OBP, UKMicrobes in the Food Chain, Quadram Institute Bioscience, Norwich Research Park, Norwich NR4 7UQ, UK<i>Staphylococcus epidermidis</i> 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 <i>Staphylococcus aureus</i>, the mechanisms behind this increasingly recognised pathogenicity are yet to be fully understood. Improving our knowledge of the metabolic processes that allow <i>S. epidermidis</i> to colonise different body sites is key to defining its pathogenic potential. Thus, we have constructed a fully curated, genome-scale metabolic model for <i>S. epidermidis</i> 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 <i>S. epidermidis</i> colonisation.https://www.mdpi.com/2218-1989/12/2/136non-aureus<i>Staphylococcus epidermidis</i>genome-scale metabolic modellinear programmingmetabolic networkmetabolism |
| spellingShingle | Teresa Díaz Calvo Noemi Tejera Iain McNamara Gemma C. Langridge John Wain Mark Poolman Dipali Singh Genome-Scale Metabolic Modelling Approach to Understand the Metabolism of the Opportunistic Human Pathogen <i>Staphylococcus epidermidis</i> RP62A Metabolites non-aureus <i>Staphylococcus epidermidis</i> genome-scale metabolic model linear programming metabolic network metabolism |
| title | Genome-Scale Metabolic Modelling Approach to Understand the Metabolism of the Opportunistic Human Pathogen <i>Staphylococcus epidermidis</i> RP62A |
| title_full | Genome-Scale Metabolic Modelling Approach to Understand the Metabolism of the Opportunistic Human Pathogen <i>Staphylococcus epidermidis</i> RP62A |
| title_fullStr | Genome-Scale Metabolic Modelling Approach to Understand the Metabolism of the Opportunistic Human Pathogen <i>Staphylococcus epidermidis</i> RP62A |
| title_full_unstemmed | Genome-Scale Metabolic Modelling Approach to Understand the Metabolism of the Opportunistic Human Pathogen <i>Staphylococcus epidermidis</i> RP62A |
| title_short | Genome-Scale Metabolic Modelling Approach to Understand the Metabolism of the Opportunistic Human Pathogen <i>Staphylococcus epidermidis</i> RP62A |
| title_sort | genome scale metabolic modelling approach to understand the metabolism of the opportunistic human pathogen i staphylococcus epidermidis i rp62a |
| topic | non-aureus <i>Staphylococcus epidermidis</i> genome-scale metabolic model linear programming metabolic network metabolism |
| url | https://www.mdpi.com/2218-1989/12/2/136 |
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