A synthetic ecology perspective: How well does behavior of model organisms in the laboratory predict microbial activities in natural habitats?
In this perspective article, we question how well model organisms, the ones that are easy to cultivate in the laboratory and that show robust growth and biomass accumulation, reflect the dynamics and interactions of microbial communities observed in nature. Today's -omics toolbox allows assessing the genomic potential of microbes in natural environments in a high-throughput fashion and at a strain-level resolution. However, understanding of the details of microbial activities and of the mechanistic bases of community function still requires experimental validation in simplified and fully controlled systems such as synthetic communities. We have studied methane utilization in Lake Washington sediment for a few decades and have identified a number of species genetically equipped for this activity. We have also identified cooccurring satellite species that appear to form functional communities together with the methanotrophs. Here, we compare experimental findings from manipulation of natural communities involved in metabolism of methane in this niche with findings from manipulation of synthetic communities assembled in the laboratory of species originating from the same study site, from very simple (two-species) to rather complex (50-species) synthetic communities. We observe some common trends in community dynamics between the two types of communities, toward representation of specific functional guilds.more »
- Univ. of Washington, Seattle, WA (United States). Dept. of Chemical Engineering
- Univ. of Washington, Seattle, WA (United States). Dept. of Microbiology
- Univ. of Washington, Seattle, WA (United States). Dept. of Chemical Engineering; eScience Inst.
- Publication Date:
- OSTI Identifier:
- Grant/Contract Number:
- Accepted Manuscript
- Journal Name:
- Frontiers in Microbiology
- Additional Journal Information:
- Journal Volume: 7; Journal ID: ISSN 1664-302X
- Frontiers Research Foundation
- Research Org:
- Univ. of Washington, Seattle, WA (United States)
- Sponsoring Org:
- USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23)
- Country of Publication:
- United States
- 59 BASIC BIOLOGICAL SCIENCES; synthetic community; methylotrophy; methanotroph; Methylobacter; Methylosarcina; Methylomonas; Lake Washington; fresh-water lake; electron-transfer; soil bacteria; methane; communities; washington; microorganisms; methylotrophs; metagenomics; populations
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