A Synthetic Community System for Probing Microbial Interactions Driven by Exometabolites

ABSTRACT Though most microorganisms live within a community, we have modest knowledge about microbial interactions and their implications for community properties and ecosystem functions. To advance understanding of microbial interactions, we describe a straightforward synthetic community system tha...

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Autores principales:	John L. Chodkowski, Ashley Shade
Formato:	article
Lenguaje:	EN
Publicado:	American Society for Microbiology 2017
Materias:	Burkholderia Chromobacterium Pseudomonas syringae community ecology microbial metabolomics model microbial systems Microbiology QR1-502
Acceso en línea:	https://doaj.org/article/a1d9da288569492eb010c5d2b4fab7a7
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spelling	oai:doaj.org-article:a1d9da288569492eb010c5d2b4fab7a72021-12-02T18:15:43ZA Synthetic Community System for Probing Microbial Interactions Driven by Exometabolites10.1128/mSystems.00129-172379-5077https://doaj.org/article/a1d9da288569492eb010c5d2b4fab7a72017-12-01T00:00:00Zhttps://journals.asm.org/doi/10.1128/mSystems.00129-17https://doaj.org/toc/2379-5077ABSTRACT Though most microorganisms live within a community, we have modest knowledge about microbial interactions and their implications for community properties and ecosystem functions. To advance understanding of microbial interactions, we describe a straightforward synthetic community system that can be used to interrogate exometabolite interactions among microorganisms. The filter plate system (also known as the Transwell system) physically separates microbial populations, but allows for chemical interactions via a shared medium reservoir. Exometabolites, including small molecules, extracellular enzymes, and antibiotics, are assayed from the reservoir using sensitive mass spectrometry. Community member outcomes, such as growth, productivity, and gene regulation, can be determined using flow cytometry, biomass measurements, and transcript analyses, respectively. The synthetic community design allows for determination of the consequences of microbiome diversity for emergent community properties and for functional changes over time or after perturbation. Because it is versatile, scalable, and accessible, this synthetic community system has the potential to practically advance knowledge of microbial interactions that occur within both natural and artificial communities. IMPORTANCE Understanding microbial interactions is a fundamental objective in microbiology and ecology. The synthetic community system described here can set into motion a range of research to investigate how the diversity of a microbiome and interactions among its members impact its function, where function can be measured as exometabolites. The system allows for community exometabolite profiling to be coupled with genome mining, transcript analysis, and measurements of member productivity and population size. It can also facilitate discovery of natural products that are only produced within microbial consortia. Thus, this synthetic community system has utility to address fundamental questions about a diversity of possible microbial interactions that occur in both natural and engineered ecosystems. Author Video: An author video summary of this article is available.John L. ChodkowskiAshley ShadeAmerican Society for MicrobiologyarticleBurkholderiaChromobacteriumPseudomonas syringaecommunity ecologymicrobial metabolomicsmodel microbial systemsMicrobiologyQR1-502ENmSystems, Vol 2, Iss 6 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Burkholderia Chromobacterium Pseudomonas syringae community ecology microbial metabolomics model microbial systems Microbiology QR1-502
spellingShingle	Burkholderia Chromobacterium Pseudomonas syringae community ecology microbial metabolomics model microbial systems Microbiology QR1-502 John L. Chodkowski Ashley Shade A Synthetic Community System for Probing Microbial Interactions Driven by Exometabolites
description	ABSTRACT Though most microorganisms live within a community, we have modest knowledge about microbial interactions and their implications for community properties and ecosystem functions. To advance understanding of microbial interactions, we describe a straightforward synthetic community system that can be used to interrogate exometabolite interactions among microorganisms. The filter plate system (also known as the Transwell system) physically separates microbial populations, but allows for chemical interactions via a shared medium reservoir. Exometabolites, including small molecules, extracellular enzymes, and antibiotics, are assayed from the reservoir using sensitive mass spectrometry. Community member outcomes, such as growth, productivity, and gene regulation, can be determined using flow cytometry, biomass measurements, and transcript analyses, respectively. The synthetic community design allows for determination of the consequences of microbiome diversity for emergent community properties and for functional changes over time or after perturbation. Because it is versatile, scalable, and accessible, this synthetic community system has the potential to practically advance knowledge of microbial interactions that occur within both natural and artificial communities. IMPORTANCE Understanding microbial interactions is a fundamental objective in microbiology and ecology. The synthetic community system described here can set into motion a range of research to investigate how the diversity of a microbiome and interactions among its members impact its function, where function can be measured as exometabolites. The system allows for community exometabolite profiling to be coupled with genome mining, transcript analysis, and measurements of member productivity and population size. It can also facilitate discovery of natural products that are only produced within microbial consortia. Thus, this synthetic community system has utility to address fundamental questions about a diversity of possible microbial interactions that occur in both natural and engineered ecosystems. Author Video: An author video summary of this article is available.
format	article
author	John L. Chodkowski Ashley Shade
author_facet	John L. Chodkowski Ashley Shade
author_sort	John L. Chodkowski
title	A Synthetic Community System for Probing Microbial Interactions Driven by Exometabolites
title_short	A Synthetic Community System for Probing Microbial Interactions Driven by Exometabolites
title_full	A Synthetic Community System for Probing Microbial Interactions Driven by Exometabolites
title_fullStr	A Synthetic Community System for Probing Microbial Interactions Driven by Exometabolites
title_full_unstemmed	A Synthetic Community System for Probing Microbial Interactions Driven by Exometabolites
title_sort	synthetic community system for probing microbial interactions driven by exometabolites
publisher	American Society for Microbiology
publishDate	2017
url	https://doaj.org/article/a1d9da288569492eb010c5d2b4fab7a7
work_keys_str_mv	AT johnlchodkowski asyntheticcommunitysystemforprobingmicrobialinteractionsdrivenbyexometabolites AT ashleyshade asyntheticcommunitysystemforprobingmicrobialinteractionsdrivenbyexometabolites AT johnlchodkowski syntheticcommunitysystemforprobingmicrobialinteractionsdrivenbyexometabolites AT ashleyshade syntheticcommunitysystemforprobingmicrobialinteractionsdrivenbyexometabolites
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A Synthetic Community System for Probing Microbial Interactions Driven by Exometabolites

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