Reference : Community integrated omics links the dominance of a microbial generalist to fine-tune...
Scientific congresses, symposiums and conference proceedings : Unpublished conference
Life sciences : Environmental sciences & ecology
Life sciences : Microbiology
http://hdl.handle.net/10993/19410
Community integrated omics links the dominance of a microbial generalist to fine-tuned resource usage
English
Muller, Emilie mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Pinel, Nicolás []
Laczny, Cédric mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Hoopmann, Michael []
Lebrun, Laura mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Roume, Hugo mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
May, Patrick mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Hicks, Nathan []
Liu, Cindy []
Price, Lance []
Gillece, John []
Guignard, Cédric []
Schupp, James []
Vlassis, Nikos [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Moritz, Robert []
Baliga, Nitin []
Keim, Paul []
Wilmes, Paul mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
2014
No
International
15th International Symposium on Microbial Ecology
from 24-08-2014 to 20-08-2014
[en] Microbial communities are complex and dynamic systems that are influenced by stochastic-neutral processes but are mainly structured by resource availability and usage. High-resolution “meta-omics” offer exciting prospects to investigate microbial populations in their native environment. In particular, integrated meta-omics, by allowing simultaneous resolution of fundamental niches (genomics) and realised niches (transcriptomics, proteomics and metabolomics), can resolve microbial lifestyles (generalist versus specialist lifestyle strategies) in situ.
We have recently developed the necessary wet- and dry-lab methodologies to carry out systematic molecular measurements of microbial consortia over space and time, and to integrate and analyse the resulting data at the population-level. We applied these methods to oleaginous mixed microbial communities located on the surface of anoxic biological wastewater treatment tanks to investigate how niche breadth (generalist versus specialist lifestyle strategies) relates to community-level phenotypes and ecological success (i.e. population size).
Coupled metabolomics and 16S rRNA gene-based deep sequencing demonstrate that the community-wide lipid accumulation phenotype is associated with the dominance of Candidatus Microthrix parvicella. By integrating population-level genomic reconstructions with transcriptomic and proteomic data, we found that the dominance of this microbial generalist population results from finely tuned resource usage and optimal foraging behaviour. Moreover, the fluctuating environmental conditions constrain the accumulation of variations, leading to a genetically homogeneous population likely due to fitness trade-offs.
By integrating metagenomic, metatranscriptomic, metaproteomic and metabolomic information, we demonstrate that natural microbial population sizes and structures are intricately linked to resource usage and that differing microbial lifestyle strategies may explain the varying degrees of within-population genetic heterogeneity observed in metagenomic datasets. Elucidating the exact mechanism driving fitness trade-offs, e.g., antagonistic pleiotropy or others, will require additional integrated omic datasets to be generated from samples taken over space and time. Based on our observations, niche breadth and lifestyle strategies (generalists versus specialists) have to be considered as important factors for understanding the evolutionary processes governing microbial population sizes and structures in situ.
http://hdl.handle.net/10993/19410

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