A Synthetic Community System for Probing Microbial Interactions Driven by Exometabolites.
A Synthetic Community System for Probing Microbial Interactions Driven by Exometabolites.
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DOI：
10.1128/msystems.00129-17
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发表时间：
2017-11
期刊：
影响因子：
6.4
通讯作者：
Shade A
中科院分区：
文献类型：
--
作者：
Chodkowski JL;Shade A
了解微生物的相互作用是微生物学和生态学的一个基本目标。这里描述的合成群落系统可以启动一系列研究，以研究微生物组的多样性及其成员之间的相互作用如何影响其功能，其中功能可以作为外代谢来衡量。该系统允许将社区外代谢物分析与基因组挖掘、转录分析以及成员生产力和群体大小的测量相结合。它还可以促进发现仅在微生物聚生体中产生的天然产物。因此，这种合成的社区系统具有实用性，以解决有关的多样性可能发生在自然和工程生态系统中的微生物相互作用的基本问题。虽然大多数微生物生活在一个社区，我们有适度的知识微生物相互作用及其对社区属性和生态系统功能的影响。为了进一步了解微生物之间的相互作用，我们描述了一个简单的合成社区系统，可用于询问微生物之间的exometabolite相互作用。滤板系统（也称为Transwell系统）物理分离微生物种群，但允许通过共享介质储存器进行化学相互作用。外代谢产物，包括小分子、胞外酶和抗生素，使用灵敏的质谱法从储库中测定。群落成员的结果，如生长，生产力和基因调控，可以分别使用流式细胞术，生物量测量和转录分析来确定。合成群落设计允许确定微生物组多样性对新兴群落特性和随时间推移或扰动后的功能变化的影响。因为它是多功能的，可扩展的，和访问，这个合成社区系统有可能实际推进自然和人工社区内发生的微生物相互作用的知识。了解微生物之间的相互作用是微生物学和生态学的一个基本目标。这里描述的合成群落系统可以启动一系列研究，以研究微生物组的多样性及其成员之间的相互作用如何影响其功能，其中功能可以作为外代谢来衡量。该系统允许将社区外代谢物分析与基因组挖掘、转录分析以及成员生产力和群体大小的测量相结合。它还可以促进发现仅在微生物聚生体中产生的天然产物。因此，这种合成的社区系统具有实用性，以解决有关的多样性可能发生在自然和工程生态系统中的微生物相互作用的基本问题。作者视频：本文的作者视频摘要可用。
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. 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.