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Accueil > Français > Équipes > Génomique de l’environnement et bioinformatique (MEB) > Publications

Communications

par DidierD - publié le , mis à jour le

2015

Jobart M, Marie D., Vaulot D., Domaizon I., Sime-ngando T., Debroas D. Lepère C. (2015) Functional role of overlooked tiny parasites in lacustrine ecosystems : a single cell approach. ASLO, Grenada

Louati I., Pascault N., Debroas D., Maloufi S., Humbert JF, Leloup J. (2015). Host-specificity of bacterial communities associated with different bloom-forming freshwater cyanobacteria. ASLO, Grenada

2013

Domaizon, I., Debroas D, Bronner G, Taib N, Lepere C, Mangot Jf, Savichtcheva O, Capo E, Lyautey E, Chardon C, et al. 2013. Application of NGS for investigating modern and past diversity of planktonic taxa in lakes : toward a multi-scale temporal view of planktonic biodiversity and its forcing factors. DNA watch Frasnes oct 2013

Doan TT Breton V, Bronner G. (2013). Experience of porting a metagenomics pipeline on the grid using DIRAC framework. EGI Technical Forum 2013. 16-20 Septembre 2013, Madrid.

Capo, E., Debroas, D., Arnaud, F., Pignol, C., Taib, N., Bronner, G., Domaizon, I. 2013. Paleo-ecologic study of lake microbial diversity : Long-term dynamic of protists and cyanobacteria revealed by sedimentary DNA. DNA watch Frasnes octobre 2013

Domaizon, I. Debroas D, Hugoni M, Bronner G, Taib N, Savichtcheva O, Lyautey E, Chardon C, et al. 2013. Microbial metagenetic approaches included in the Alpine Lake Observatory : DNA & RNA analyses for investigating modern and past planktonic diversity. GLEON meeting Argentine

Domaizon, I. Savichtcheva O, Kirkham A, Debroas D, Perga ME, Arnaud F et al. 2013. Coupling paleolimnology and molecular tools to reveal the long-term dynamics and diversity of planktonic assemblages : focus on diatoms and cyanobacteria. 7th Central European Diatoms Meeting. France 18-20 Sept

Domaizon, I. et al. 2013. Microbial metagenetic approaches : DNA & RNA analyses for investigating modern and past planktonic diversity. GLEON meeting Argentine 2013

Gregory-Eaves, I., Jacas, L., Chardon, C., Debroas, D., Domaizon, I. How do environmental DNA results vary across different extraction methods ? Canadian Quaternary Association biannual meeting August 18-22, 2013, Edmonton, Alberta (CA)

Hugoni M., Debroas D., Agogué H., Taib N., Domaizon I., Bronner G., Galand P.E., Mary I. (2013) Diversity and ecological role of mesophilic Archaea in aquatic ecosystems. Meeting of French scientists involved in archaeal research (Brest, France)

Mangot, J.F., Domaizon, I., Taib, N., Marouni, N., Duffaud, E., Bronner, G., Debroas, D. Evidence of continual reassembly within lacustrine small eukaryotes by the analysis of short-term dynamics of diversity patterns. British Society of Protist Biology meeting, 10-12 April 2013, London (UK)

Hugoni M, Agogué H, Taib N, Domaizon I, Moné A, Galand P, Bronner G, Debroas D, Mary I. (2013) Temporal and spatial dynamics of active prokaryotic nitrifiers and archaeal communities from river to sea. 13th Symposium of Aquatic and Microbial Ecology (SAME 13), Stresa, Italy

Hugoni M. & Taib N., Debroas D., Domaizon I., Jouan-Dufournel I., Bronner G., Salter I., Agogué H., Mary I., Galand P.E. (2013) Study of archaeal dynamics in the Mediterranean Sea : new insights in ecological role of the rare biosphere. Meeting of the scientific school of Clermont-Ferrand

Comtet S., Chaucheyras-Durand F., Mosoni P., Denonfoux J., Biderre-Petit C., Forano E., Peyret P. Développement d’une méthode efficace d’enrichissement en ARNm adaptée à l’étude du métatransciptome ruminal. VIème colloque de l’Association Francophone d’Ecologie Microbienne (AFEM), Parent, France (22-25 octobre 2013)

Hugoni M, Agogué H, Taib N, Domaizon I, Moné A, Galand P, Bronner G, Debroas D, Mary I. (2013) Temporal changes in archaeal community composition associated with Ammonia Oxidizing Archaea dynamics along an estuarine salinity gradient. Meeting of French scientists involved in archaeal research (Brest, France)

Biderre-Petit C., Dugat-Bony E., Denonfoux J., Parisot N., Mege M., Peyretaillade E., Debroas D., Boucher D., Peyret P. Phylogenetic and functional characterization of new organohalide-respiring bacteria in a natural lacustrine ecosystem (Lake Pavin) using high-throughput sequencing and gene capture strategies. Aquatic Microbial Ecology SAME 13, Stresa, Italie, 8-13 septembre.

Parisot N, Denonfoux J, Ribière C, Jaziri F, Comtet S, Attard E, Gasc C, Boucher D, Biderre-Petit C, Rimour S, Peyret P, Peyretaillade E. Détermination de sondes oligonucléotidiques pour outils moléculaires à haut-débit. VIème colloque de l’Association Francophone d’Ecologie Microbienne (AFEM), Parent, France (22-25 octobre 2013).

Comtet S., Chaucheyras-Durand F., Mosoni P., Denonfoux J., Biderre-Petit C., Forano E., Peyret P. Efficient method for rumen microbiota mRNAs enrichment improvingmetatranscriptomic analysis. CGIF, Congress on Gastrointestinal Function, USA (Chicago, avril 2013).

B. PARVEEN,V. RAVET,, F. ENAULT, I. MARY, A. VELLET , C. DJEDIAT, C. QUIBLIER, J-F. HUMBERT et D. DEBROAS. Diversités spécifique et fonctionnelle comparées des microbiomes libres ou associés aux microalgues et cyanobactéries dans les écosystèmes lacustres. Colloque de restitution de la 3e prospective nationale de recherche 2013/2017 des Surfaces et Interfaces Continentales (SIC) piloté par le CNRS-INSU.21-23 mai 2013. CNRS Paris.

2012

ROUX S., ENAULT F., KRUPOVIC M., RAVET V., MAHUL A., SIME-NGANDO T., DEBROAS D. (2012)- Assessment of viral communities richness, diversity, and biogeography through virome comparative analyses. EMBO conferences, 2nd Conference on Viruses of Microbes, 16-20 juillet, Bruxelles (Belgique).

Najwa Taib N, Gisèle Bronner G, Jean-Christophe Charvy JC, Engelbert Mephu Nguifo E, Vincent Breton V, Didier Debroas D (2012). ePANAM : a web server dedicated to the analysis of next generation amplicons. 19 - 24 August 2012 Copenhagen,Denmark.

I Domaizon, O Savichtcheva, D Debroas, C Villar, C Pignol, J.P Jenny, F Arnaud, M E Perga 2012. Long term dynamics and diversity of freshwater picocyanobacteria : coupling molecular tools and paleolimnological approach. Intermational Paleolomnology Symposium Aout 2012 Glasgow -UK

Hugoni M. & Taib N., Debroas D., Domaizon I., Jouan-Dufournel I., Bronner G., Salter I., Agogué H., Mary I., Galand P.E. (2012) Archaeal rare biosphere and seasonal dynamics of active ecotypes in coastal waters. International meeting of limnology and oceanography (Clermont Ferrand, France)

Denonfoux J., Parisot N., Dugat-Bony E., Biderre-Petit C., Boucher D. et al. Targeted metagenome exploration by solution hybridization-selection capture coupled with next generation sequencing. ISME 2012, Danemark (Copenhague, août 2012).

Hugoni M., Etien S., Bourges A., Lepère C., Domaizon I., Mallet C., Bronner G., Debroas D., Mary I. (2012) Community structure and temporal dynamics of ammonia-oxidizing Crenarchaeota in the photic zone of French lakes. Environmental genomics meeting (Lyon, France)

Roux S., Taib N., Mangot J.F., Hugoni M., Mary I., Ravet V., Bronner G., Enault F., Debroas D. (2012) High-throughput sequencing data analysis through phylogenetic approaches : tools and methods. Environmental genomics meeting (Lyon, France)

Mangot J F, Domaizon I., taib n, marouni n, duffaud e, bronner g, debroas d. (2012) Variations à court terme de la diversité du picoplancton eucaryote lacustre : approche par sequencage massif normalisé. Colloque génomique environnementale, Ecole thématique génomique Environnementale , Avril 2012- Aussois.

Biderre-Petit C., Mege M., Dugat-Bony E., Denonfoux J., Parisot N. et al. Etude du rôle écologique des Dehalococcoidetes (microorganismes déhalorespirants) dans le fonctionnement d’un écosystème lacustre peu anthropisé, le lac Pavin, JILO, France (Clermont-Ferrand, octobre 2012).

Parisot N., Denonfoux J., Dugat-Bony E., Boucher D., Biderre-Petit C. et al. AFFILGOOD : An Innovative Strategy for Accurate Taxonomic Classification of Metagenomic Sequences. Ecole Thématique d’Experts en Génomique Environnementale, France (Aussois, avril 2012).

Denonfoux J., Parisot N., Dugat-Bony E., Biderre-Petit C., Boucher D. et al. Targeted metagenome exploration by solution hybridization-selection capture coupled with next generation sequencing ISME 2012, Danemark (Copenhague, août 2012).

2011

Hugoni M., Etien S., Bourges A., Lepère C., Domaizon I., Mallet C., Bronner G., Debroas D., Mary I. (2011) Diversity and spatio-temporal dynamics of Archaea and ammonia oxidizing communities in the photic zone of temperate lakes. 12th Symposium of Aquatic and Microbial Ecology (SAME 12), Rostock, Germany

Doan TT, Nguyen QH, Taib N, Charvy JC, Bronner G, Debroas D, Breton V, Mephu Ngufo E (2011). Portage de ePANAM sur la grille de calcul. Rencontres Scientifiques France Grilles 2011.

Hugoni M., Etien S., Bourges A., Lepère C., Domaizon I., Mallet C., Bronner G., Debroas D., Mary I. (2011) Community structure and temporal dynamics of ammonia-oxidizing Crenarchaeota in the photic zone of French lakes. Meeting of the scientific school of Clermont-Ferrand

Domaizon I., O. Savichtcheva, A. Kirkham, D.Debroas, C. Villar, J.P. Jenny, C. Pignol, F. Arnaud, M. Perga. 2011. The analysis of PRESERVED DNA to assess CHANGES in cyanobacteria and diatoms dynamics and diversity : coupling paleolimninogy and molecular tools. ASLO meeting Aquatic sciences, Puerto Rico 13-18 Fev 2011.

Hugoni M., Etien S., Bourges A., Lepère C., Domaizon I., Mallet C., Bronner G., Debroas D., Mary I. (2011). Structure and temporal dynamics of ammonia oxidizing Archaea in lacustrine ecosystems. 8th Meeting of Microbiologists from Clermont-Fd area (Clermont Ferrand, France)

O. Savichtcheva, A. Kirkham, D.Debroas, C. Villar, M. Perga., J.P. Jenny, C. Pignol, F. Arnaud, I. Domaizon 2011. Application of real-time quantitative pcr (qpcr) for enumeration of planktothrix population (cyanobacteria) in the lake sediments : coupling paleolimnological and molecular tools . SEFS 7, Girona Spain, 27 June-1July 2011.

Rabie Saidi, W. Dhifli, S. Aridhi, M. Agier, G. Bronnier, D. Debroas, L. d’Orazio, F. Enault, S. Guillaume, E. Mephu Nguifo : Protein Classification in the Case of Large and Many-Class Datasets : A comparison with BLAST and BLAT. IJournées Ouvertes en Biologie, Informatique et Mathématiques JOBIM, Paris 2011

Rabie Saidi, Wajdi Dhifli, Sabeur Aridhi, Marie Agier, Gisèle Bronner, Didier Debroas, Laurent D’orazio, François Enault, Sylvie Guillaume, And Engelbert Mephu Nguifo (2011). Protein Classification in the Case of Large and Many-Class Datasets - A Comparison with BLAST and BLAT. Congrès JOBIM - 28 juon-1er Juillet Paris.

Simon Roux, Francois Enault, Agnès Robin, Viviane Ravet, Sébastien Personnic, Sébastien Theil, Jonathan Colombet, Telesphore Sime-Ngando and Didier Debroas (2011). Metagenomic analysis of the viral communities of temperate freshwater lakes. meeting "Viruses of the environment", Heidelberg March 22-23.

I. Domaizon, O. Savichtcheva, A. Kirkham, D. Debroas, C. Villar, J.P. Jenny, C. Pignol, F. Arnaud, M. Perg (2011). The analysis of preserved DNA to assess changes in cyanobacteria and diatoms dynamics and diversity : coupling paleolimninogy and molecular tools. ASLO 2011.

Denonfoux J., Dugat-Bony E., Biderre-Petit C., Boucher D., Peyretaillade E., Peyret P. Metagenomics exploration by solution hybridization-targeted capture. FEMS 2011 : 4th Congress of European Microbiologists, Geneva (Suisse, 26-30 juin)

Dugat-Bony E., Biderre-Petit C., Boucher D., Peyretaillade E., Denonfoux J., Jaziri F., Moné A., Chebance B., Peyret P. Identification of microbial biodegradation capacities on multiple contaminated sites by functional DNA microarrays. P.11th Conference on Bacterial Genetics and Ecology BAGECO 11. Corfu (Grèce, mai).

Dugat-Bony E., Biderre-Petit C., Denonfoux J., Jaziri F., Parisot N., Boucher D., Moné A., Chebance B., Peyretaillade E., Peyret P. Suivi des capacités de biodégradation des solvants chlorés par des approches biopuces ADN. Journées de l’école Doctorale SVSAE (Clermont-Ferrand, avril).

Dugat-Bony E., Biderre-Petit C., Denonfoux J., Jaziri F., Parisot N., Boucher D., Moné A., Chebance B., Peyretaillade E., Peyret P. Suivi des capacités de biodégradation des solvants chlorés par des approches biopuces ADN. 8ème Rencontre des Microbiologistes du pôle clermontois (Clermont-Ferrand, avril).

Peyret P., Jaziri F., Denonfoux J., Dugat-Bony E., Rimour S., Hill D., Curvers C., Richard J.Y., Peyretaillade E., Boucher D., Biderre-Petit C. Exploring microbial biodiversity to improve bioremediation. BIT’s 1st Annual World Congress of Marine Biotechnology, Dalian (Chine, 25-29 avril).

Peyret P., Jaziri F., Denonfoux J., Dugat-Bony E., Rimour S., Hill D., Peyretaillade E., Boucher D., Biderre-Petit C. Complex diversity of bacterial communities during bioremediation of aliphatic hydrocarbons-contaminated soil. BIT’s 1st Annual World Congress of Marine Biotechnology, Dalian (Chine, 25-29 avril).

Peyret P. , Dugat-Bony E., Jaziri F., Denonfoux J., Boucher D., Biderre-Petit C., Hill D., Curvers C., Richard J.Y., Rimour S., Peyretaillade E. Probe Design Software for Explorative Phylogenetic and Functional DNA Microarrays Development in Microbial Ecology. BIT’s 1st Annual World Congress of Marine Biotechnology, Dalian (Chine, 25-29 avril).

Lepère C., J.F Mangot, I. Domaizon & D. Debroas. 2010. Insights into the diversity and ecology of small eukaryotes in lakes. International Society of Protistologists and British Society for Protist Biology Joint Meeting (ISOP and BSPB Joint Meeting). Université du Kent, Canterbury (Grande-Bretagne), 18-23 Juillet 2010.

Simon Roux, Francois Enault, Agnès Robin, Viviane Ravet, Sébastien
Personnic, Sébastien Theil, Jonathan Colombet, Telesphore Sime-Ngando and Didier Debroas (2010) Metagenomic analysis of the viral communities of temperate freshwater lakes. Colloque EC2CO Toulouse

Simon Roux, Francois Enault, Agnès Robin, Viviane Ravet, Sébastien
Personnic, Sébastien Theil, Jonathan Colombet, Telesphore Sime-Ngando and Didier Debroas (2010). Analyse de données métagenomiques de communautés virales lacustres. Rencontres Alphy 9 et 10 février (Génomique Evolutive, Bioinformatique, Alignement et Phylogénie)

Kirkham A., Perga M.E., Debroas D, Villar C., Savichtcheva O, Jenny J.P., Pignol C., Arnaud F., Domaizon I., 2010 - The use of preserved DNA to assess historical diatom communities in peri alpine lake Bourget : a paleolimnological approach.. Journées Internationales de Limnologie JIL 2010 –AFL, 5-8 octobre 2010, Thonon-les-Bains, France. p.55.

Savichtcheva O., Debroas D., Perga M.E., Villar C., Kirkham A., Jenny J.P., Pignol C., Arnaud F., Domaizon I., 2010 - Application of real-time PCR (QPCR) for enumeration of Planktothrix population (cyanobacteria) in the lake sediments : a paleolimnological approach. [Poster]. Journées Internationales de Limnologie JIL 2010 –AFL, 5-8 octobre 2010, Thonon-les-Bains, (France). p. 54-55.

Mangot J.F., Debroas D., Mary I., Domaizon I., 2010 - New insights on potential host-parasites associations revealed by short-term variations of the Perkinsozoa abundance in lacustrine planktonic systems. Journées Internationales de Limnologie JIL 2010 –AFL, 5-8 octobre 2010, Thonon-les-Bains, (France), p. 53-54.

Mangot J-F., I. Mary, D. Debroas & I. Domaizon. (2010). Short-term variations of the Perkinsozoa abundance in lacustrine systems : new insights on potential host-parasites associations. International Society of Protistologists and British Society for Protist Biology Joint Meeting (ISOP and BSPB Joint Meeting). Université du Kent, Canterbury (Grande-Bretagne), 18-23 Juillet 2010.

Bouzid O., Biderre-Petit C., Dugat-Bony E., Missaoui M. Morgavi P. D., Mosoni P., Forano E., Fonty G., Peyret P. Élaboration d’une biopuce ADN fonctionnelle pour la caractérisation et le suivi des populations microbiennes impliquées dans la méthanogenèse. VIIIème Congrès National de la Société Française de Microbiologie. Palais des Congrès, Parc Chanot, 2- 4 juin, Marseille.

Dugat-Bony E., Biderre-Petit C., Missaoui M., Dumas E., Bouzid O, Peyret P. Caractérisation des communautés bactériennes impliquées dans la biodégradations des solvants chlorés par des approches biopuces ADN. Journées thématiques de l’AFEM, "Les intéractions microbiennes passées et présentes". Marseille.

Denonfoux J., Jaziri F., Missaoui M., Dugat-Bony E., Terrat S., Bouzid O., Dumas E., Mone A., Chebance B., Petit-Biderre C., Boucher D., Goncalves O., Peyretaillade E., Peyret P. Microbial communities adaptation induced by global change. ACCAE (Clermont-Ferrand, France, 20-22 octobre).

Borrel G., Biderre-Petit C., Lopes F., Morel N., Morel JP., Jezequel D., Lehours AC., Peyret P., Fonty G. Aerobic and anaerobic methane oxidation in the pelagic zone of a meromictic lake (lake Pavin, Auvergne). Studying the ‘Unknown’ with Metabolic Design, a new probe design software for explorative functional microarrays development in microbial ecology. ACCAE (Clermont-Ferrand, France, 20-22 octobre).

Borrel G., Biderre-Petit C., Lehours A.C., Lopes F., Morel N., Morel JP., Jezequel D., Peyret P., Fonty G. Oxydation aérobie et anaérobie du méthane dans la colonne d’eau du lac Pavin (Auvergne). Journées thématiques de l’AFEM, "Les intéractions microbiennes passées et présentes" (Marseille 4-5 mai).

Perchet G., Dugat-Bony E., Biderre-Petit C., Ossedat M., Troquet J., Peyret P. Bioattenuation of chlorinated solvents : a laboratory scale study. Consoil. Salzburg (Autriche, septembre).

Denonfoux J., Jaziri F., Missaoui M., Dugat-Bony E., Terrat S., Bouzid O, Dumas E., Moné A., Chebance B., Biderre-Petit C., Boucher D., Goncalves O., Peyretaillade E., Peyret P. Metagenomics exploration by microarray-based operon capture. International Society for Microbal Ecology, Etats Unis (Seattle, 22-27 août).

Bouzid O., Biderre-Petit C., Dugat-Bony E., Missaoui M. Morgavi P. D., Mosoni P., Forano E., Fonty G., Peyret P. Development of DNA microarray as tool to study the microbial ecosystems involved in methanogenesis pathway. INRA- ROWETT Symposium, Grande Bretagne (Abeerden, 22-24 juin).