Paper reading (八十九)：A unified conceptual framework for prediction and control of microbiomes

论文题目：A unified conceptual framework for prediction and control of microbiomes

scholar 引用：4

页数：8

发表时间：2018.07

发表刊物：Current Opinion in Microbiology

作者：James C Stegen, Eric M Bottos and Janet K Jansson

作者单位：Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory

摘要：

Microbiomes impact nearly all systems on Earth, and despite vast differences among systems, we contend that it is possible and highly beneficial to develop a unified conceptual framework for understanding microbiome dynamics that is applicable across systems. The ability to robustly predict and control environmental and human microbiomes would provide impactful opportunities to sustain and improve the health of ecosystems and humans alike. Doing so requires understanding the processes governing microbiome temporal dynamics, which currently presents an enormous challenge. We contend, however, that new opportunities can emerge by placing studies of both environmental and human microbiome temporal dynamics in the context of a unified conceptual framework. Our conceptual framework poses that factors influencing the temporal dynamics of microbiomes can be grouped into three broad categories: biotic and abiotic history, internal dynamics, and external forcing factors. Both environmental and human microbiome science study these factors, but not in a coordinated or consistent way. Here we discuss opportunities for greater crosstalk across these domains, such as leveraging specific ecological concepts from environmental microbiome science to guide optimization of strategies to manipulate human microbiomes towards improved health. To achieve unified understanding, it is necessary to have a common body of theory developed from explicit iteration between models and molecular-based characterization of microbiome dynamics across systems. Only through such model-experiment iteration will we eventually achieve prediction and control across microbiomes that impact ecosystem sustainability and human health.

正文组织架构：

1. Introduction

2. Conceptual foundations

3. Historical contingencies

4. Internal dynamics

5. External forcing factors

6. Challenges and opportunities

正文部分内容摘录：

这依旧是一篇综述，没有涉及到具体的干预实验。

1. 健康还是特定疾病？多少个体和组别？就是说这些组别的个体是对健康个体进行干预，还是特定疾病的人在干预？

2. 有哪些组学数据可利用？

3. 组学数据的下载ID是什么？

4. 研究的干预基本结果和结论是什么？

• we contend that achieving robust predictions of future states and maximal benefit from interventions aimed at altering microbiomes, requires recognition of history’s impact on response to perturbation/manipulation.
• We see additional opportunities for greater crosstalk across human and environmental microbiome research by focusing on succession following acute perturbations. This may point to new strategies to manipulate the human microbiome by imposing acute perturbations and, in turn, purposefully guiding succession. 
• We therefore contend that there is a broad need to resolve the relative influences of external forcing factors and internal dynamics in both environmental and human microbiome research.