Environmental Microbial Genomics Group

Logos Genomenviron and Ampere

Laboratoire Ampere
Ecole Centrale de Lyon . France
Université de Lyon

(33) 472 18 60 92

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The Environmental Microbial Genomics Group in the Laboratoire Ampère at the Ecole Centrale de Lyon (Université de Lyon; "University of Lyons") examines a range of research topics from fundamental mechanisms of microbial adaptation (Archaea (see film here), Bacteria, Fungi) such as horizontal gene transfer, nitrogen cycle and de novo gene synthesis to environmental perturbations due to anthropogenic activities such as nickel mining and environmental pollution. Important society based questions are also addressed such as the fate of transgenes from transgenic plants, drug discovery, impact of anthropogenic extreme environments, fate of REACH chemicals, the bioremediation of contaminated soils and water (environmental bioengineering) and the importance of climate change (N2O, melting polar ice caps). Other scientific questions include the microbial ecology of diverse environments such as the human digestive tract, human skin and mercury-impacted Arctic snow (see video).

A central technological approach employed to answer different questions relies on combining the use of 'omic methods and next generation sequencing (both 2nd and 3rd generation) with classical environmental microbiology. Metagenomic techniques access total microbial genomes in environments in order to avoid biases associated with culture-dependent approaches. Production and screening of clone libraries, use of phylogenetic microarrays and functional gene quantification with Real-time PCR and DNA and RNA (cDNA) sequencing (an Illumina MiSeq and an Oxford Nanopore sequencer) are commonly used methods. A range od bioinformatics and modeling approaches are used including microbial ecology networks.

This group also benefits from close ties with electrical engineers for the exploration of the effect of lightning on gene transfer, possible lightning related soil bioremediation techniques, and the production of electricity from microbial fuel cells.

This range of research can be alternatively referred to as microbial ecology, environmental microbiology (click for intro in French ) and ecological engineering.

 

 

Latest News and Events

  • Dr Rose Layton defended her thesis entitled "Microbial community structure and function across the seawater-sea ice-frost flower-snow-atmosphere continuum " under the direction of Catherine Larose and Timothy M. Vogel and outside experts Lyle White: Canada Research Chair in Polar Microbiology, Department of Natural Resources Sciences– McGill University; Jill Mikucki: Department of Microbiology- University of Tennessee; Mohamed Jebbar : Laboratoire de Microbiologie des Environnements - Université de Brest ; Jeff Bowman: Integrative Oceanography Division- Scripps Institution of Oceanography
  • Dr Benoit Bergk Pinto defended his thesis entitled "Organic acid driven bacterial interactions in Arctic snow " under the direction of Catherine Larose and Timothy M. Vogel and outside experts C. GOSTINCAR, Chair of Molecular Genetics and Microbiology - Dept of Biology - University of Ljubljana; B. FREY, Group leader - Eidg. Forschungsanstalt WSL; P. LOPEZ-GARCIA, Laboratoire d’écologie, systématique et évolution (ESE), CNRS - Université Paris-Sud - AgroParisTech
  • Dr Romie Tignat-Perrier defended her thesis entitled " Factors controlling microbial community structure in the atmosphere's planetary boundary layer" under the direction of Cather Larose and Aurélien Dommergues (Univ Grenoble) and outside experts Viviane Despres from Max Planck Institute for Chemistry Biochemistry Department – Mainz, Germany, Andrea Franzetti from University of Milano Department of Earth and Environmental Sciences – Milan, Italy, Barabra D'Anna from Laboratoire Chimie Environnement Université Aix Marseille – Marseille, France and Pierre Amato from Institut de Chimie de Clermont-Ferrand – Clermont-Ferrand, France.
 

ANR projets: EVASOL HYBIOX SOLAO ULTRABIO APTITUDE ALIMINTEST SEPTANTE METASOIL PLOBEN
European proects OSIRIS METAEXPLORE TRANSBAC
CNRS projets BIOPILOTE BIOPILE MFC GENEFISH Rhône-Alpes région METAGENE

 


20 February 2021