Reference : Integrated time-resolved multi-omics for understanding microbial niche ecology
Scientific congresses, symposiums and conference proceedings : Poster
Life sciences : Biotechnology
Life sciences : Environmental sciences & ecology
Life sciences : Microbiology
Systems Biomedicine
http://hdl.handle.net/10993/38046
Integrated time-resolved multi-omics for understanding microbial niche ecology
English
Herold, Malte mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Narayanasamy, Shaman mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > > ; Megeno Sarl, Luxembourg]
Martinez Arbas, Susana mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Muller, Emilie mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > > ; Université de Strasbourg > Equipe Adaptations et Interactions Microbiennes]
Kleine-Borgmann, Anna Luise mailto [University of Luxembourg > Faculty of Science, Technology and Communication (FSTC) > Physics and Materials Science Research Unit >]
Lebrun, Laura mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Roume, Hugo mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > > ; French National Institute for Agricultural Research > MetaGenoPolis]
Sheik, Abdul mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Bessarab, Irina [Singapore Centre for Environmental Life Sciences]
Williams, Rohan [Singapore Centre for Environmental Life Sciences]
Gillece, John [The Translational Genomics Research Institute]
Schupp, Jim [The Translational Genomics Research Institute]
Keim, Paul [The Translational Genomics Research Institute]
Jäger, Christian mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Hoopmann, Michael [Institute for Systems Biology - ISB]
Li, Sujun [University of Indiana > School of Informatics and Computing]
Tang, Haixu [University of Indiana > School of Informatics and Computing]
Heintz, Anna mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > > ; German Centre for Integrative Biodiversity Research (iDiv)]
May, Patrick mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Laczny, Cedric Christian mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Wilmes, Paul mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Aug-2018
No
International
17th International Symposium on Microbial Ecology
from 12-08-2018 to 17-08-2018
Leipzig
Germany
[en] Microbial communities are strongly shaped by the niche breadths of their constituent populations. However, a detailed understanding of microbial niche ecology is typically lacking. Integrated multi-omic analyses of host- or environment-derived samples offer the prospect of resolving fundamental and realised niches in situ. In turn, this is considered a prerequisite for niche engineering in order to drive an individual population or a community towards a specific phenotype, e.g., improvement of a biotechnological process.
Here, we sampled floating islets on the surface of an activated sludge tank in a time-series spanning 51 time-points over 14 months. Multi-omics datasets (metagenomics, metatranscriptomics, metaproteomics, and (meta-)metabolomics) were generated for all time-points. Leveraging nucleotide sequencing data, we analyzed the community structure and reconstructed genomes for specific populations of interest. Moreover, based on their metabolic potential, three major groups emerged, serving as proxies for their respective fundamental niches . Time-resolved linkage of the proteomic and transcriptomic data to the reconstructed genomes revealed a fine-grained picture of niche realization. In particular, environmental factors (temperature, metabolites, oxygen) were significantly associated with gene expression of individual populations. Furthermore, we subjected the community to controlled oxygen conditions (stable or dynamic) in a bioreactor experiment and measured the transcriptomic response. Our results suggest short-term adaptations of populations of interest with respect to lipid metabolism, among other pathways.
In conclusion, our work demonstrates how longitudinal multi-omic datasets can be integrated in order to further our understanding of microbial niche ecology within a biotechnological process with potential applications beyond waste water treatment.
Luxembourg Centre for Systems Biomedicine (LCSB): Eco-Systems Biology (Wilmes Group)
Fonds National de la Recherche - FnR
Researchers
http://hdl.handle.net/10993/38046
FP7 ; 321567 - ERASYSAPP - ERASysAPP - Systems Biology Applications
FnR ; FNR8888488 > Paul Wilmes > SysMetEx > Systems Biology of Acidophile Biofilms for Efficient Metal Extraction > 01/03/2015 > 31/07/2018 > 2014

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