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微生物模型群落:为理解复杂性,利用简单性的力量。

Microbial model communities: To understand complexity, harness the power of simplicity.

作者信息

Bengtsson-Palme Johan

机构信息

Department of Infectious Diseases, Institute of Biomedicine, The Sahlgrenska Academy, University of Gothenburg, Guldhedsgatan 10, SE-413 46 Gothenburg, Sweden.

Centre for Antibiotic Resistance Research (CARe) at University of Gothenburg, Gothenburg, Sweden.

出版信息

Comput Struct Biotechnol J. 2020 Dec 2;18:3987-4001. doi: 10.1016/j.csbj.2020.11.043. eCollection 2020.

Abstract

Natural microbial communities are complex ecosystems with myriads of interactions. To deal with this complexity, we can apply lessons learned from the study of model organisms and try to find simpler systems that can shed light on the same questions. Here, microbial model communities are essential, as they can allow us to learn about the metabolic interactions, genetic mechanisms and ecological principles governing and structuring communities. A variety of microbial model communities of varying complexity have already been developed, representing different purposes, environments and phenomena. However, choosing a suitable model community for one's research question is no easy task. This review aims to be a guide in the selection process, which can help the researcher to select a sufficiently well-studied model community that also fulfills other relevant criteria. For example, a good model community should consist of species that are easy to grow, have been evaluated for community behaviors, provide simple readouts and - in some cases - be of relevance for natural ecosystems. Finally, there is a need to standardize growth conditions for microbial model communities and agree on definitions of community-specific phenomena and frameworks for community interactions. Such developments would be the key to harnessing the power of simplicity to start disentangling complex community interactions.

摘要

自然微生物群落是具有无数相互作用的复杂生态系统。为了应对这种复杂性,我们可以借鉴从模式生物研究中学到的经验,尝试找到能够阐明相同问题的更简单系统。在此,微生物模式群落至关重要,因为它们能让我们了解支配和构建群落的代谢相互作用、遗传机制及生态原理。已经开发出了各种复杂度不同的微生物模式群落,代表着不同的目的、环境和现象。然而,为自己的研究问题选择一个合适的模式群落并非易事。本综述旨在成为选择过程的指南,帮助研究人员选择一个经过充分研究且还满足其他相关标准的模式群落。例如,一个好的模式群落应由易于培养的物种组成,这些物种的群落行为已得到评估,能提供简单的读数,并且在某些情况下与自然生态系统相关。最后,需要对微生物模式群落的生长条件进行标准化,并就群落特定现象的定义以及群落相互作用的框架达成共识。这些进展将是利用简单性的力量来开始解开复杂群落相互作用的关键。

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