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Extending the minimal model of metabolic oscillations in Bacillus subtilis biofilms
Biofilms are composed of microorganisms attached to a solid surface or floating on top of a liquid surface. They pose challenges in the field of medicine but can also have useful applications in industry. Regulation of biofilm growth is complex and still largely elusive. Oscillations are thought to...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7101430/ https://www.ncbi.nlm.nih.gov/pubmed/32221356 http://dx.doi.org/10.1038/s41598-020-62526-6 |
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author | Garde, Ravindra Ibrahim, Bashar Schuster, Stefan |
author_facet | Garde, Ravindra Ibrahim, Bashar Schuster, Stefan |
author_sort | Garde, Ravindra |
collection | PubMed |
description | Biofilms are composed of microorganisms attached to a solid surface or floating on top of a liquid surface. They pose challenges in the field of medicine but can also have useful applications in industry. Regulation of biofilm growth is complex and still largely elusive. Oscillations are thought to be advantageous for biofilms to cope with nutrient starvation and chemical attacks. Recently, a minimal mathematical model has been employed to describe the oscillations in Bacillus subtilis biofilms. In this paper, we investigate four different modifications to that minimal model in order to better understand the oscillations in biofilms. Our first modification is towards making a gradient of metabolites from the center of the biofilm to the periphery. We find that it does not improve the model and is therefore, unnecessary. We then use realistic Michaelis-Menten kinetics to replace the highly simple mass-action kinetics for one of the reactions. Further, we use reversible reactions to mimic the diffusion in biofilms. As the final modification, we check the combined effect of using Michaelis-Menten kinetics and reversible reactions on the model behavior. We find that these two modifications alone or in combination improve the description of the biological scenario. |
format | Online Article Text |
id | pubmed-7101430 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-71014302020-03-31 Extending the minimal model of metabolic oscillations in Bacillus subtilis biofilms Garde, Ravindra Ibrahim, Bashar Schuster, Stefan Sci Rep Article Biofilms are composed of microorganisms attached to a solid surface or floating on top of a liquid surface. They pose challenges in the field of medicine but can also have useful applications in industry. Regulation of biofilm growth is complex and still largely elusive. Oscillations are thought to be advantageous for biofilms to cope with nutrient starvation and chemical attacks. Recently, a minimal mathematical model has been employed to describe the oscillations in Bacillus subtilis biofilms. In this paper, we investigate four different modifications to that minimal model in order to better understand the oscillations in biofilms. Our first modification is towards making a gradient of metabolites from the center of the biofilm to the periphery. We find that it does not improve the model and is therefore, unnecessary. We then use realistic Michaelis-Menten kinetics to replace the highly simple mass-action kinetics for one of the reactions. Further, we use reversible reactions to mimic the diffusion in biofilms. As the final modification, we check the combined effect of using Michaelis-Menten kinetics and reversible reactions on the model behavior. We find that these two modifications alone or in combination improve the description of the biological scenario. Nature Publishing Group UK 2020-03-27 /pmc/articles/PMC7101430/ /pubmed/32221356 http://dx.doi.org/10.1038/s41598-020-62526-6 Text en © The Author(s) 2020 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. |
spellingShingle | Article Garde, Ravindra Ibrahim, Bashar Schuster, Stefan Extending the minimal model of metabolic oscillations in Bacillus subtilis biofilms |
title | Extending the minimal model of metabolic oscillations in Bacillus subtilis biofilms |
title_full | Extending the minimal model of metabolic oscillations in Bacillus subtilis biofilms |
title_fullStr | Extending the minimal model of metabolic oscillations in Bacillus subtilis biofilms |
title_full_unstemmed | Extending the minimal model of metabolic oscillations in Bacillus subtilis biofilms |
title_short | Extending the minimal model of metabolic oscillations in Bacillus subtilis biofilms |
title_sort | extending the minimal model of metabolic oscillations in bacillus subtilis biofilms |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7101430/ https://www.ncbi.nlm.nih.gov/pubmed/32221356 http://dx.doi.org/10.1038/s41598-020-62526-6 |
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