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    Cyril Bontemps


     

    Bio: I received my Ph.D in Microbial Ecology from the University of Lyon in 2005. Under the supervision of Catherine Boivin-Masson both in the LSTM (Montpellier) and LIPM (Toulouse) labs, my work focused on the creation of molecular tools to detect rhizobia that are plant mutualistic bacteria. I then continued my research activities from 2006 to 2009 at the University of York (UK) during two different post-docs. In the first one, in Peter Young’s lab, I prospected the rhizobia diversity in investigating the distribution and the evolution of the recently discovered b-rhizobia. In the second one, in the CNAP under the supervision of Neil Bruce, I studied the diversity of explosive-degrading bacteria and their involved mechanisms. I then joined the DynAMic Lab in September 2009 as a lecturer (assistant professor)

    Research:  In using approaches from microbiology to genomics, my current work focuses on the evolution and on the ecology of Streptomyces. In using Streptomyces collections created from grains of soil, I tried to measure the evolution of Streptomyces in their natural environment and decipher what are the main drivers of this evolution. I also tried to infer the consequences of this evolution on the ecological traits at the population level. I am also interested in exploiting the Streptomyces functional diversity in more applied projects (e.g. developing biosensors for wood degradation, discovering of molecules with interesting activities…).

    Teaching: As a lecturer, I teach 192H per year to Bachelor and Master of Science students (from years 1 to 5). My main teaching topics are Microbiology, Evolution, Phylogeny and Microbial Ecology.


    Journal articles34 documents

    • Jodelle Degois, Xavier Simon, Frédéric Clerc, Cyril Bontemps, Pierre Leblond, et al.. One-year follow-up of microbial diversity in bioaerosols emitted in a waste sorting plant in France. Waste Management, Elsevier, 2021, 120, pp.257-268. ⟨10.1016/j.wasman.2020.11.036⟩. ⟨hal-03070350⟩
    • Matthieu Nicault, Ali Zaiter, Stéphane Dumarcay, Patrick Chaimbault, Éric Gelhaye, et al.. Elicitation of Antimicrobial Active Compounds by Streptomyces-Fungus Co-Cultures. Microorganisms, MDPI, 2021, 9 (1), pp.178. ⟨10.3390/microorganisms9010178⟩. ⟨hal-03112257⟩
    • Matthieu Nicault, Abdoul-Razak Tidjani, Éric Gelhaye, Cyril Bontemps, Pierre Leblond. Genome Sequences of Five Streptomyces Strains Isolated at Microscale. Microbiology Resource Announcements, American Society for Microbiology, 2020, 9 (23), ⟨10.1128/MRA.00428-20⟩. ⟨hal-02801725⟩
    • Matthieu Nicault, Abdoul-Razak Tidjani, Anthony Gauthier, Stéphane Dumarcay, Éric Gelhaye, et al.. Mining the Biosynthetic Potential for Specialized Metabolism of a Streptomyces Soil Community. Antibiotics, MDPI, 2020, 9 (5), pp.271. ⟨10.3390/antibiotics9050271⟩. ⟨hal-02619232⟩
    • Abdoul-Razak Tidjani, Cyril Bontemps, Pierre Leblond. Telomeric and sub-telomeric regions undergo rapid turnover within a Streptomyces population. Scientific Reports, Nature Publishing Group, 2020, 10 (1), ⟨10.1038/s41598-020-63912-w⟩. ⟨hal-02569171⟩
    • Jodelle Degois, Xavier Simon, Cyril Bontemps, Pierre Leblond, Philippe Duquenne. Characterization of experimental complex fungal bioaerosols: Impact of analytical method on fungal composition measurements. Aerosol Science and Technology, Taylor & Francis, 2019, 53 (2), pp.146-159. ⟨10.1080/02786826.2018.1557320⟩. ⟨hal-02177356⟩
    • Abdoul-Razak Tidjani, Jean-Noël Lorenzi, Maxime Toussaint, Erwin van Dijk, Delphine Naquin, et al.. Massive Gene Flux Drives Genome Diversity between Sympatric Streptomyces Conspecifics. mBio, American Society for Microbiology, 2019, ⟨10.1128/mBio.01533-19⟩. ⟨hal-02278804⟩
    • Abdoul-Razak Tidjani, Jean-Noël Lorenzi, Maxime Toussaint, Erwin van Dijk, Delphine Naquin, et al.. Genome Sequences of 11 Conspecific Streptomyces sp. Strains. Microbiology Resource Announcements, American Society for Microbiology, 2019, 8 (38), ⟨10.1128/MRA.00863-19⟩. ⟨hal-02292599⟩
    • Mabrouka Benhadj, Djamila Gacemi-Kirane, Maxime Toussaint, Laurence Hotel, Cyril Bontemps, et al.. Diversity and antimicrobial activities of Streptomyces isolates from Fetzara Lake, north eastern Algeria. Annales de Biologie Clinique, John Libbey Eurotext, 2018, 76 (1), pp.81-95. ⟨10.1684/abc.2017.1316⟩. ⟨hal-01844922⟩
    • Jodelle Degois, Frédéric Clerc, Xavier Simon, Cyril Bontemps, Pierre Leblond, et al.. First metagenomic survey of the microbial diversity in bioaerosols emitted in waste sorting plants. Annals of Work Exposures and Health, Oxford University Press, 2017, 61 (9), pp.1076 - 1086. ⟨10.1093/annweh/wxx075⟩. ⟨hal-01655252⟩
    • Maxime Toussaint, Cyril Bontemps, Arnaud Besserer, Laurence Hotel, Philippe Gérardin, et al.. Whole-cell biosensor of cellobiose and application to wood decay detection. Journal of Biotechnology, Elsevier, 2016, 239, pp.39 - 46. ⟨10.1016/j.jbiotec.2016.10.003⟩. ⟨hal-01655326⟩
    • Grégory Hoff, Claire Bertrand, Lingli Zhang, Emilie Piotrowski, Ludovic Chipot, et al.. Multiple and Variable NHEJ-Like Genes Are Involved in Resistance to DNA Damage in Streptomyces ambofaciens. Frontiers in Microbiology, Frontiers Media, 2016, 7, pp.1901. ⟨10.3389/fmicb.2016.01901⟩. ⟨hal-01521993⟩
    • Cyril Bontemps, Marco Rogel, Anja Wiechmann, Assel Mussabekova, Sarah Moody, et al.. Endemic Mimosa species from Mexico prefer alphaproteobacterial rhizobial symbionts. New Phytologist, Wiley, 2016, 209 (1), pp.319 - 333. ⟨10.1111/nph.13573⟩. ⟨hal-01655686⟩
    • Chun Shiong Chong, Dana Khdr Sabir, Astrid Lorenz, Cyril Bontemps, Peter Andeer, et al.. Analysis of the xplAB-Containing Gene Cluster Involved in the Bacterial Degradation of the Explosive Hexahydro-1,3,5-Trinitro-1,3,5-Triazine. Applied and Environmental Microbiology, American Society for Microbiology, 2014, 80 (21), pp.6601 - 6610. ⟨10.1128/AEM.01818-14⟩. ⟨hal-01477281⟩
    • Abdur Rahman, Catherine Cailliez-Grimal, Cyril Bontemps, Sophie Payot-Lacroix, Stephane Chaillou, et al.. High genetic diversity among strains of the unindustrialized lactic acid bacterium carnobacterium maltaromaticum in dairy products as revealed by multilocus sequence typing. Applied and Environmental Microbiology, American Society for Microbiology, 2014, 80 (13), pp.3920-3929. ⟨10.1128/AEM.00681-14⟩. ⟨hal-01190026⟩
    • Cyril Bontemps, Maxime Toussaint, Pierre-Vincent Revol, Laurence Hotel, Mathilde Jeanbille, et al.. Taxonomic and functional diversity of Streptomyces in a forest soil. FEMS Microbiology Letters, Wiley-Blackwell, 2013, 342 (2), pp.157 - 167. ⟨10.1111/1574-6968.12126⟩. ⟨hal-01655681⟩
    • S.-Y. Sheu, J.-H. Chou, C. Bontemps, G. N. Elliott, E. Gross, et al.. Burkholderia diazotrophica sp. nov., isolated from root nodules of Mimosa spp.. International Journal of Systematic and Evolutionary Microbiology, Microbiology Society, 2013, 63 (Pt 2), pp.435 - 441. ⟨10.1099/ijs.0.039859-0⟩. ⟨hal-01477184⟩
    • Shih-Yi Sheu, Jui-Hsing Chou, Cyril Bontemps, Geoffrey Elliott, Eduardo Gross, et al.. Burkholderia symbiotica sp. nov., isolated from root nodules of Mimosa spp. native to north-east Brazil. International Journal of Systematic and Evolutionary Microbiology, Microbiology Society, 2012, 62 (Pt 9), pp.2272-2278. ⟨10.1099/ijs.0.037408-0⟩. ⟨hal-01655728⟩
    • Wei-Min Chen, Wen-Fei Zhu, Cyril Bontemps, Hong Wei, J. Peter W. Young, et al.. Mesorhizobium camelthorni sp. nov., isolated from Alhagi sparsifolia. International Journal of Systematic and Evolutionary Microbiology, Microbiology Society, 2011, 61 (3), pp.574-579. ⟨10.1099/ijs.0.022947-0⟩. ⟨hal-01655740⟩
    • Prasad Gyaneshwar, Ann Hirsch, Lionel Moulin, Wen-Ming Chen, Geoffrey Elliott, et al.. Legume-Nodulating Betaproteobacteria: Diversity, Host Range, and Future Prospects. Molecular Plant-Microbe Interactions, American Phytopathological Society, 2011, 24 (11), pp.1276-1288. ⟨10.1094/MPMI-06-11-0172⟩. ⟨hal-01655720⟩
    • Wei-Min Chen, Wen-Fei Zhu, Cyril Bontemps, J. Peter W. Young, Ge Hong Wei. Mesorhizobium alhagi sp. nov., isolated from wild Alhagi sparsifolia in north-western China. International Journal of Systematic and Evolutionary Microbiology, Microbiology Society, 2010, 60 (4), pp.958-962. ⟨10.1099/ijs.0.014043-0⟩. ⟨hal-01655743⟩
    • Cyril Bontemps, Geoffrey N. Elliott, Marcelo F. Simon, FÁbio B. dos Reis JÚnior, Eduardo Gross, et al.. Burkholderia species are ancient symbionts of legumes. Molecular Ecology, Wiley, 2010, 19 (1), pp.44 - 52. ⟨10.1111/j.1365-294X.2009.04458.x⟩. ⟨hal-01655679⟩
    • Fábio Bueno dos Reis, Marcelo F. Simon, Eduardo Gross, Robert Boddey, Geoffrey Elliott, et al.. Nodulation and nitrogen fixation by Mimosa spp. in the Cerrado and Caatinga biomes of Brazil. New Phytologist, Wiley, 2010, 186 (4), pp.934 - 946. ⟨10.1111/j.1469-8137.2010.03267.x⟩. ⟨hal-01655708⟩
    • Gehong Wei, Weimin Chen, Wenfei Zhu, Chun Chen, J. Peter W. Young, et al.. Invasive Robinia pseudoacacia in China is nodulated by Mesorhizobium and Sinorhizobium species that share similar nodulation genes with native American symbionts. FEMS Microbiology Ecology, Wiley-Blackwell, 2009, 68 (3), pp.320-328. ⟨10.1111/j.1574-6941.2009.00673.x⟩. ⟨hal-01655734⟩
    • Geoffrey Elliott, Jui-Hsing Chou, Wen-Ming Chen, Guido Bloemberg, Cyril Bontemps, et al.. Burkholderia spp. are the most competitive symbionts of Mimosa , particularly under N-limited conditions. Environmental Microbiology, Society for Applied Microbiology and Wiley-Blackwell, 2009, 11 (4), pp.762 - 778. ⟨10.1111/j.1462-2920.2008.01799.x⟩. ⟨hal-01655718⟩
    • Gehong Wei, Weimin Chen, J. Peter W. Young, Cyril Bontemps. A new clade of Mesorhizobium nodulating Alhagi sparsifolia. Systematic and Applied Microbiology, Elsevier, 2009, 32 (1), pp.8-16. ⟨10.1016/j.syapm.2008.11.003⟩. ⟨hal-01655732⟩
    • Claire Amadou, Géraldine Pascal, Sophie Mangenot, Michelle Glew, Cyril Bontemps, et al.. Genome sequence of the -rhizobium Cupriavidus taiwanensis and comparative genomics of rhizobia. Genome Research, Cold Spring Harbor Laboratory Press, 2008, 18 (9), pp.1472 - 1483. ⟨10.1101/gr.076448.108⟩. ⟨hal-01655676⟩
    • Wen-Ming Chen, Sergio de Faria, Jui-Hsing Chou, E. K. James, Geoffrey Elliott, et al.. Burkholderia sabiae sp. nov., isolated from root nodules of Mimosa caesalpiniifolia. International Journal of Systematic and Evolutionary Microbiology, Microbiology Society, 2008, 58 (9), pp.2174-2179. ⟨10.1099/ijs.0.65816-0⟩. ⟨hal-01655692⟩
    • Geoffrey Elliott, Wen-Ming Chen, Jui-Hsing Chou, Hui-Chun Wang, Shih-Yi Sheu, et al.. Burkholderia phymatum is a highly effective nitrogen-fixing symbiont of Mimosa spp. and fixes nitrogen ex planta. New Phytologist, Wiley, 2007, 173 (1), pp.168 - 180. ⟨10.1111/j.1469-8137.2006.01894.x⟩. ⟨hal-01655713⟩
    • Geoffrey Elliott, Wen-Ming Chen, Cyril Bontemps, Jui-Hsing Chou, J.Péter. W Young, et al.. Nodulation of Cyclopia spp. (Leguminosae, Papilionoideae) by Burkholderia tuberum. Annals of Botany, Oxford University Press (OUP), 2007, 100 (7), pp.1403 - 1411. ⟨10.1093/aob/mcm227⟩. ⟨hal-01655717⟩
    • Catherine Boivin-Masson, Cyril Bontemps, Geoffroy Golfier, Carine Gris-Liebe, Luc Talini. Détection et typage du gène à l'aide de biopuces à ADN : perspectives pour l'étude de la diversité et de l'écologie moléculaire des rhizobia. Les Actes du BRG, 2006, 6, pp.97 - 110. ⟨hal-01655670⟩
    • Cyril Bontemps, Geoffroy Golfier, Carine Gris-Liebe, Sebastien Carrere, Luc Talini, et al.. Microarray-Based Detection and Typing of the Rhizobium Nodulation Gene nodC: Potential of DNA Arrays To Diagnose Biological Functions of Interest. Applied and Environmental Microbiology, American Society for Microbiology, 2005, 71 (12), pp.8042 - 8048. ⟨10.1128/AEM.71.12.8042–8048.2005⟩. ⟨hal-01655599⟩
    • Wen-Ming Chen, Lionel Moulin, Cyril Bontemps, Peter Vandamme, Gilles Béna, et al.. Legume Symbiotic Nitrogen Fixation by β-Proteobacteria Is Widespread in Nature. Journal of Bacteriology, American Society for Microbiology, 2003, 185 (24), pp.7266-7272. ⟨10.1128/JB.185.24.7266-7272.2003⟩. ⟨hal-01655696⟩
    • Vincent Burrus, Cyril Bontemps, Bernard Decaris, G. Guédon. Characterization of a Novel Type II Restriction-Modification System, Sth368I, Encoded by the Integrative Element ICESt1 of Streptococcus thermophilus CNRZ368. Applied and Environmental Microbiology, American Society for Microbiology, 2001, 67 (4), pp.1522 - 1528. ⟨10.1128/AEM.67.4.1522–1528.2001⟩. ⟨hal-01655688⟩

    Conference papers11 documents

    • Caroline Choufa, Anthony Gauthier, Manar Harb, Vos Michiel, Cyril Bontemps, et al.. Diversity and mobility of conjugative elements in a population of Streptomyces isolated from a rhizospheric micro-habitat.. Journées des Actinobactéries 2020 - ACTINO 2020, Dec 2020, Conférence virtuelle Gif Sur Yvette, France. ⟨hal-03060874⟩
    • Jodelle Degois, Frédéric Clerc, Simon Xavier, Cyril Bontemps, Pierre Leblond, et al.. Suivi sur une année de la biodiversité microbienne dans les bioaerosols émis dans un centre de tri des déchets. Congrès français sur les aérosols 2018 (CFA), Jan 2018, Paris, France. ⟨hal-01582590⟩
    • Abdoul-Razak Tidjani, Jean-Noël Lorenzi, Olivier Lespinet, Cyril Bontemps, Pierre Leblond. Massive gene fluxes in bacterial population fuels adaptation to soil forest ecosystem. Functional Ecology Conference Nancy 2018, Dec 2018, Nancy, France. ⟨hal-02306656⟩
    • Matthieu Nicault, Cyril Bontemps, Éric Gelhaye, Pierre Leblond. Decipher and exploit interactions between bacteria and fungi to identify new bioactive metabolites. Séminaire LUE Impact/Biomolécules du futur : de la découverte aux applications, May 2018, Nancy, France. ⟨hal-03216629⟩
    • J Degois, X. Simon, C Bontemps, Pierre Leblond, P Duquenne. Generation of a fungal consortium: impact of analytic tools on biodiversity analysis. European Aerosol Conference EAC 2017, Aug 2017, Zurich, Switzerland. ⟨hal-01657801⟩
    • J Degois, F. Clerc, X. Simon, C Bontemps, Pierre Leblond, et al.. One year follow up of microbial biodiversity in French waste sorting plant. 9th International Symposium on Modern Principles of Air Monitoring and Biomonitoring (AIRMON 2017), Jun 2017, Dresden, Germany. ⟨hal-01657806⟩
    • Abdoul-Razak Tidjani, Maxime Toussaint, Jean-Noël Lorenzi, Laurence Hotel, Olivier Lespinet, et al.. Evolution génomique au sein d'une population naturelle de Streptomyces. Actino2017 Journées des Actinobactéries, Oct 2017, Lyon, France. ⟨hal-01655238⟩
    • Maxime Toussaint, Abdoul-Razak Tidjani, Jean-Noël Lorenzi, Laurence Hotel, Olivier Lespinet, et al.. Micro-time scale genome evolution among natural populations of Streptomyces. International Symposium of the Biology of Actinomycetes, May 2017, Jeju, South Korea. ⟨hal-01625360⟩
    • J Degois, F. Clerc, X. Simon, C Bontemps, Pierre Leblond, et al.. Bioaerosol biodiversity in waste sorting plant: feasibility and uncertainty measurement. European Aerosol Conference EAC 2016, Sep 2016, Tours, France. ⟨hal-01657790⟩
    • Stephane Uroz, Marie-Pierre Turpault, Océane Nicolitch, Yannick Colin, Marc Buée, et al.. Impact of nutrient availability on the diversity, function and functioning of the forest soil bacterial communities: insights from the soil succession of the forest experimental site of Montiers.. Labex ARBRE conference, Oct 2016, Champenoux, France. ⟨hal-03339707⟩
    • Cyril Bontemps, Laurence Hotel, Pierre-Vincent Revol, Mathilde Jeanbille, Stéphane Uroz, et al.. Taxonomic and functional diversity of Streptomyces in a forest soil. Journées Actinomycètes, 2012, Nancy, France. ⟨hal-01269133⟩

    Poster communications6 documents

    • Abdoul-Razak Tidjani, Jean-Noël Lorenzi, Olivier Lespinet, Cyril Bontemps, Pierre Leblond. Massive gene flux in bacterial population fuels adaptation to forest soil ecosystem. 15ème congrès de la Société Française de Microbiologie, Sep 2019, Paris 19ème, France. 2019. ⟨hal-02314235⟩
    • Matthieu Nicault, Cyril Bontemps, Eric Gelhaye, Pierre Leblond. Activation of antimicrobial compounds by bacterial/fungal co-cultures. 8th FEMS Congress of European Microbiologists - FEMS 2019, Jul 2019, Glasgow, United Kingdom. ⟨hal-03216608⟩
    • Matthieu Nicault, Cyril Bontemps, Éric Gelhaye, P. Leblond. Activation of cryptic biosynthetic pathways by bacterial/fungal co-cultures. Biomolecules: Research & Development, Markets and Acceptability - LUE Impact Biomolecule seminar, Oct 2019, Palma de Mallorca, Spain. ⟨hal-03216601⟩
    • Matthieu Nicault, Cyril Bontemps, Éric Gelhaye, Pierre Leblond. Bacteria/fungi Interactions (BFI): a way to awake secondary metabolite gene clusters. Lorraine Université d'Excellence (LUE) Séminaire Impact Biomolécules, May 2018, Nancy, France. ⟨hal-03216622⟩
    • Matthieu Nicault, Cyril Bontemps, Éric Gelhaye, Pierre Leblond. Deciphering and exploiting bacteria-fungi dialogues to identify new bioactive metabolites. 12èmes Rencontres de Phytopathologie - Mycologie de la Société Française de Phytopathologie, Jan 2018, Aussois, France. ⟨hal-03216613⟩
    • Caroline Choufa, Abdoul-Razak Tidjani, Claire Veneault-Fourrey, Vos Michiel, Cyril Bontemps, et al.. Interplay between lateral gene transfer and rhizosphere functioning. Functional ecology conference 2018, Dec 2018, Nancy, France. ⟨hal-03060574⟩

    Patents1 document

    • Cyril Bontemps, Maxime Toussaint, Pierre Leblond. Biosenseur bactérien de la dégradation du bois. France, N° de brevet: WO2016131665. 2016. ⟨hal-01655306⟩