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Impact of Temporal pH Fluctuations on the Coexistence of Nasal Bacteria in an in silico Community

To manipulate nasal microbiota for respiratory health, we need to better understand how this microbial community is assembled and maintained. Previous work has demonstrated that the pH in the nasal passage experiences temporal fluctuations. Yet, the impact of such pH fluctuations on nasal microbiota...

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Autores principales: Dedrick, Sandra, Akbari, M. Javad, Dyckman, Samantha K., Zhao, Nannan, Liu, Yang-Yu, Momeni, Babak
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7902723/
https://www.ncbi.nlm.nih.gov/pubmed/33643241
http://dx.doi.org/10.3389/fmicb.2021.613109
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author Dedrick, Sandra
Akbari, M. Javad
Dyckman, Samantha K.
Zhao, Nannan
Liu, Yang-Yu
Momeni, Babak
author_facet Dedrick, Sandra
Akbari, M. Javad
Dyckman, Samantha K.
Zhao, Nannan
Liu, Yang-Yu
Momeni, Babak
author_sort Dedrick, Sandra
collection PubMed
description To manipulate nasal microbiota for respiratory health, we need to better understand how this microbial community is assembled and maintained. Previous work has demonstrated that the pH in the nasal passage experiences temporal fluctuations. Yet, the impact of such pH fluctuations on nasal microbiota is not fully understood. Here, we examine how temporal fluctuations in pH might affect the coexistence of nasal bacteria in in silico communities. We take advantage of the cultivability of nasal bacteria to experimentally assess their responses to pH and the presence of other species. Based on experimentally observed responses, we formulate a mathematical model to numerically investigate the impact of temporal pH fluctuations on species coexistence. We assemble in silico nasal communities using up to 20 strains that resemble the isolates that we have experimentally characterized. We then subject these in silico communities to pH fluctuations and assess how the community composition and coexistence is impacted. Using this model, we then simulate pH fluctuations—varying in amplitude or frequency—to identify conditions that best support species coexistence. We find that the composition of nasal communities is generally robust against pH fluctuations within the expected range of amplitudes and frequencies. Our results also show that cooperative communities and communities with lower niche overlap have significantly lower composition deviations when exposed to temporal pH fluctuations. Overall, our data suggest that nasal microbiota could be robust against environmental fluctuations.
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spelling pubmed-79027232021-02-25 Impact of Temporal pH Fluctuations on the Coexistence of Nasal Bacteria in an in silico Community Dedrick, Sandra Akbari, M. Javad Dyckman, Samantha K. Zhao, Nannan Liu, Yang-Yu Momeni, Babak Front Microbiol Microbiology To manipulate nasal microbiota for respiratory health, we need to better understand how this microbial community is assembled and maintained. Previous work has demonstrated that the pH in the nasal passage experiences temporal fluctuations. Yet, the impact of such pH fluctuations on nasal microbiota is not fully understood. Here, we examine how temporal fluctuations in pH might affect the coexistence of nasal bacteria in in silico communities. We take advantage of the cultivability of nasal bacteria to experimentally assess their responses to pH and the presence of other species. Based on experimentally observed responses, we formulate a mathematical model to numerically investigate the impact of temporal pH fluctuations on species coexistence. We assemble in silico nasal communities using up to 20 strains that resemble the isolates that we have experimentally characterized. We then subject these in silico communities to pH fluctuations and assess how the community composition and coexistence is impacted. Using this model, we then simulate pH fluctuations—varying in amplitude or frequency—to identify conditions that best support species coexistence. We find that the composition of nasal communities is generally robust against pH fluctuations within the expected range of amplitudes and frequencies. Our results also show that cooperative communities and communities with lower niche overlap have significantly lower composition deviations when exposed to temporal pH fluctuations. Overall, our data suggest that nasal microbiota could be robust against environmental fluctuations. Frontiers Media S.A. 2021-02-10 /pmc/articles/PMC7902723/ /pubmed/33643241 http://dx.doi.org/10.3389/fmicb.2021.613109 Text en Copyright © 2021 Dedrick, Akbari, Dyckman, Zhao, Liu and Momeni. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Microbiology
Dedrick, Sandra
Akbari, M. Javad
Dyckman, Samantha K.
Zhao, Nannan
Liu, Yang-Yu
Momeni, Babak
Impact of Temporal pH Fluctuations on the Coexistence of Nasal Bacteria in an in silico Community
title Impact of Temporal pH Fluctuations on the Coexistence of Nasal Bacteria in an in silico Community
title_full Impact of Temporal pH Fluctuations on the Coexistence of Nasal Bacteria in an in silico Community
title_fullStr Impact of Temporal pH Fluctuations on the Coexistence of Nasal Bacteria in an in silico Community
title_full_unstemmed Impact of Temporal pH Fluctuations on the Coexistence of Nasal Bacteria in an in silico Community
title_short Impact of Temporal pH Fluctuations on the Coexistence of Nasal Bacteria in an in silico Community
title_sort impact of temporal ph fluctuations on the coexistence of nasal bacteria in an in silico community
topic Microbiology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7902723/
https://www.ncbi.nlm.nih.gov/pubmed/33643241
http://dx.doi.org/10.3389/fmicb.2021.613109
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