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Brief Curiculum vitae of stephane UROZ


BIO: I received my PhD in Microbial Ecology from the University of Paris XI (Orsay) in 2004 with Yves DESSAUX and Phil OGER as my advisers. My PhD research project was focused on the biological stability of the quorum sensing signal molecules, especially the N-acyl homoserine lactone class based on the hypothesis that these molecules need to be degraded to act as a signal, possibly by bacteria naturally occurring in the soil.To verify this hypothesis, I combined classical microbiology, molecular tools, genetic, biochemistry and chemistry. I performed my PhD in three places : in the lab ‘Interactions Plant Microorganisms’ at the Institute of Plant Sciences (ISV, Gif-sur-Yvette ; adviser : Yves Dessaux) ; in the lab of “Sciences de la Terre” at Normal School (ENS, Lyon ; adviser : Phil Oger) and at the Institute of Infections and Immunity at University of Nottingham (Queen’s Medical Centre, Nottingham; advisers: Paul Williams, Miguel Camara and Siri Ram Chhabra)(European Union Marie Curie programme). The 15th of october 2004, I defended my thesis (Jury: P. SIMONET, S. REVERCHON, D. HAAS, M. DUBOW, Y. DESSAUX, P. OGER).

The 22th of october 2004, I was hired as Junior Research associate (CR2) in the EFPA department of the French National Institute for Agricultural Reasearch (INRA), at the interface between two research units: i) The “Tree microbes interactions” (IAM, UMR1136) unit and ii) the “Biogeochemical cycles in forest ecosystems” (BEF, UR1138) unit. I am member of the Ecogenomic and mineral weathering teams. In January 2009, I became Research associate (CR1).

The 24th of februrary 2014, I defended my HDR (Habilitation à diriger des recherches) entitled “Ecology of biotic and abiotic interactions of the forest soil bacterial communities: characterization of the actors, mechanims and related genes” (Jury: C. MOUGEL, P. SIMONET, S. VUILLEMIER, R. MARMEISSE, L. MOULIN, P. LEBLOND, E. GELHAYE, P. OGER and P. FREY-KLETT).

I was appointed INRA Research Director (DR2) in december 2014 and as head of the Ecogenomics of interactions team in January 2020.

My main collaborator is Marie-Pierre TURPAULT (Geochemist and mineralogist). Laura PICARD  joined (01/10/2018) the team to perform her PhD thesis entitled ‘Ecology and genomics of mineral weathering bacteria’. I am also involved in several projects related to microbial ecology, interactions between bacteria/fungi and signalling between bacteria with the colleagues of the Ecogenomic team (M. BUEE, A. DEVEAU, F.MARTIN, L. AUER, E. MORIN).

RESEARCH TOPICS:

My current projects, integrated in a more global questioning related to forest ecosystem functioning and sustainability, are linking genomics on model bacterial strains to microbial ecology:

  • Forest soil as a reservoir of microbial biodiversity (specific diversity by monogenic metagenomics, global approach by massive metagenomics and functional metagenomics)
  • Forest soil as a reservoir of mineral weathering bacteria (functional diversity, genetics, genomics link to biogeochemistry and mineralogy)
  • Minerals and rocks as microbial habitats (mineralosphere)
  • Microbial interactions and functions in the rhizosphere and mycorrhizosphere
  • Impact of nutrient availability (inorganic nutrients)/ soil type /tree species on microbial communities
  • Impact of the microorganisms on the nutrient cycle (geomicrobiology)
  • Genomics and genetics of mineral weathering bacteria
  • Interactions microbe-microbe (quorum sensing signals)

COLLABORATIONS :
Phil Oger (CNRS-ENS, Lyon), PE Courty (INRAE, Dijon), Johan H.J. Leveau (Univ. Davis, USA), Wietse de Boer (NIOO-KNAW, Netherlands), Jussi Heinonsalo (Univ. Helsinki, Finland), Jean Armengaud (CEA-Marcoule, Bagnols-sur-Cèze), Cédric Paris (ENSAIA/UL, Vandoeuvre-les-Nancy).


Journal articles81 documents

  • François Thomas, Nolwen Le Duff, Ting-Di Wu, Aurélie Cébron, Stéphane Uroz, et al.. Isotopic tracing reveals single-cell assimilation of a macroalgal polysaccharide by a few marine Flavobacteria and Gammaproteobacteria. ISME Journal, Nature Publishing Group, In press, ⟨10.1038/s41396-021-00987-x⟩. ⟨hal-03220808⟩
  • S. Mieszkin, P. Richet, C. Bach, C. Lambrot, Laurent Augusto, et al.. Oak decaying wood harbors taxonomically and functionally different bacterial communities in sapwood and heartwood. Soil Biology and Biochemistry, Elsevier, 2021, 155, pp.1-12. ⟨10.1016/j.soilbio.2021.108160⟩. ⟨hal-03195736⟩
  • Laura Picard, Cédric Paris, Tiphaine Dhalleine, Emmanuelle Morin, Philippe Oger, et al.. The mineral weathering ability of Collimonas pratensis PMB3(1) involves a Malleobactin-mediated iron acquisition system. Environmental Microbiology, Society for Applied Microbiology and Wiley-Blackwell, In press, ⟨10.1111/1462-2920.15508⟩. ⟨hal-03194986⟩
  • Sophie Mieszkin, Eva Pouder, Stéphane Uroz, Christelle Simon-Colin, Karine Alain. Acidisoma silvae sp. nov. and Acidisoma cellulosilytica sp. nov., Two Acidophilic Bacteria Isolated from Decaying Wood, Hydrolyzing Cellulose and Producing Poly-3-hydroxybutyrate. Microorganisms, MDPI, 2021, ⟨10.3390/microorganisms9102053⟩. ⟨hal-03357174⟩
  • Y. Colin, M.-P. Turpault, L. Fauchery, M. Buée, Stéphane Uroz. Forest plant cover and mineral type determine the diversity and composition of mineral-colonizing fungal communities. European Journal of Soil Biology, Elsevier, 2021, 105, pp.103334. ⟨10.1016/j.ejsobi.2021.103334⟩. ⟨hal-03336939⟩
  • Laura Picard, Philippe Oger, Marie-Pierre Turpault, Stephane Uroz. Draft Genome Sequence of Collimonas pratensis Strain PMB3(1), an Effective Mineral-Weathering and Chitin-Hydrolyzing Bacterial Strain. Microbiology Resource Announcements, American Society for Microbiology, 2020, 9 (37), ⟨10.1128/MRA.00601-20⟩. ⟨hal-02939115⟩
  • Stephane Uroz, Laura Picard, Marie-Pierre Turpault, Lucas Auer, J. Armengaud, et al.. Dual transcriptomics and proteomics analyses of the early stage of interaction between Caballeronia mineralivorans PML1(12) and mineral. Environmental Microbiology, Society for Applied Microbiology and Wiley-Blackwell, In press, 22 (9), pp.3838-3862. ⟨10.1111/1462-2920.15159⟩. ⟨hal-02902180⟩
  • Laura Picard, Marie-Pierre Turpault, P. Oger, Stephane Uroz. Identification of a novel type of glucose dehydrogenase involved in the mineral weathering ability of Collimonas pratensis strain PMB3(1). FEMS Microbiology Ecology, Wiley-Blackwell, 2020, ⟨10.1093/femsec/fiaa232⟩. ⟨hal-03000681⟩
  • Richard Splivallo, Maryam Vahdatzadeh, Jose G Maciá-Vicente, Virginie Molinier, Martina Peter, et al.. Orchard Conditions and Fruiting Body Characteristics Drive the Microbiome of the Black Truffle Tuber aestivum. Frontiers in Microbiology, Frontiers Media, 2019, 10, pp.1437. ⟨10.3389/fmicb.2019.01437⟩. ⟨hal-02264371⟩
  • S. Uroz, Phil M. Oger. Corrigendum to “Caballeronia mineralivorans sp. nov., isolated from oak-Scleroderma citrinum mycorrhizosphere” [Syst. Appl. Microbiol. 40 (2017) 345–351]. Systematic and Applied Microbiology, Elsevier, 2019, 42 (3), pp.423-424. ⟨10.1016/j.syapm.2019.03.001⟩. ⟨hal-02122345⟩
  • O Nicolitch, M Feucherolles, J.-L Churin, Laure Fauchery, M.-P Turpault, et al.. A microcosm approach highlights the response of soil mineral weathering bacterial communities to an increase of K and Mg availability. Scientific Reports, Nature Publishing Group, 2019, 9, ⟨10.1038/s41598-019-50730-y⟩. ⟨hal-02913039⟩
  • Pierre Plassart, Nicolas Chemidlin Prévost-Bouré, Stéphane Uroz, Samuel Dequiedt, Dorothy Stone, et al.. Soil parameters, land use, and geographical distance drive soil bacterial communities along a European transect. Scientific Reports, Nature Publishing Group, 2019, 9 (1), pp.1-17. ⟨10.1038/s41598-018-36867-2⟩. ⟨hal-02067245⟩
  • Stéphane Uroz, Pierre-Emmanuel Courty, P. Oger. Plant Symbionts Are Engineers of the Plant-Associated Microbiome. Trends in Plant Science, Elsevier, 2019, 24 (10), pp.905-916. ⟨10.1016/j.tplants.2019.06.008⟩. ⟨hal-02334474⟩
  • P E Courty, Marc Buee, J J T Tech, D Brulé, Yannick Colin, et al.. Impact of soil pedogenesis on the diversity and composition of fungal communities across the California soil chronosequence of Mendocino. Mycorrhiza, Springer Verlag, 2018, 28 (4), pp.343-356. ⟨10.1007/s00572-018-0829-9⟩. ⟨hal-01815206⟩
  • Célia Krieger, Christophe Calvaruso, C. Morlot, Stéphane Uroz, L. Salsi, et al.. Identification, distribution, and quantification of biominerals in a deciduous forest. Geobiology, Wiley, 2017, 15 (2), pp.296-310. ⟨10.1111/gbi.12223⟩. ⟨hal-01594541⟩
  • Marc Crampon, Aurélie Cébron, Florence Portet-Koltalo, Stéphane Uroz, Franck Le Derf, et al.. Low effect of phenanthrene bioaccessibility on its biodegradation in diffusely contaminated soil. Environmental Pollution, Elsevier, 2017, 225, pp.663-673. ⟨10.1016/j.envpol.2017.03.053⟩. ⟨hal-01597866⟩
  • Yannick Colin, Océane Nicolitch-Café, Marie-Pierre Turpault, Stéphane Uroz. Mineral types and tree species determine the functional and taxonomic structures of forest soil bacterial communities. Applied and Environmental Microbiology, American Society for Microbiology, 2017, 83 (5), pp.e02684-16. ⟨10.1128/AEM.02684-16⟩. ⟨hal-01548673⟩
  • Yannick Colin, Océane Nicolitch-Café, J. D. van Nostrand, J Z Zhou, Marie-Pierre Turpault, et al.. Taxonomic and functional shifts in the beech rhizosphere microbiome across a natural soil toposequence. Scientific Reports, Nature Publishing Group, 2017, 7 (1), pp.1-17. ⟨10.1038/s41598-017-07639-1⟩. ⟨hal-01611454⟩
  • Océane Nicolitch, Yannick Colin, Marie-Pierre Turpault, Laure Fauchery, Stéphane Uroz. Tree roots select specific bacterial communities in the subsurface critical zone. Soil Biology and Biochemistry, Elsevier, 2017, 115, pp.109-123. ⟨10.1016/j.soilbio.2017.07.003⟩. ⟨hal-01683170⟩
  • Marta Torres, Stéphane Uroz, Rafael Salto, Laure Fauchery, Emilia Quesada, et al.. HqiA, a novel quorum-quenching enzyme which expands the AHL lactonase family. Scientific Reports, Nature Publishing Group, 2017, 7 (1), ⟨10.1038/s41598-017-01176-7⟩. ⟨hal-01568881⟩
  • Francis Martin, Stéphane Uroz, David Barker. Ancestral alliances: Plant mutualistic symbioses with fungi and bacteria. Science, American Association for the Advancement of Science, 2017, 356 (6340), pp.1-9. ⟨10.1126/science.aad4501⟩. ⟨hal-01606874⟩
  • Stéphane Uroz, P. Oger. Caballeronia mineralivorans sp. nov., isolated from oak-Scleroderma citrinum mycorrhizosphere.. Systematic and Applied Microbiology, Elsevier, 2017, 40 (6), pp.345-351. ⟨10.1016/j.syapm.2017.05.005⟩. ⟨hal-01644024⟩
  • Elly Morriën, S Emilia Hannula, L Basten Snoek, Nico R Helmsing, Hans Zweers, et al.. Soil networks become more connected and take up more carbon as nature restoration progresses.. Nature Communications, Nature Publishing Group, 2017, 8, pp.1-10. ⟨10.1038/ncomms14349⟩. ⟨hal-01581635⟩
  • S. Uroz, P. Oger, E. Tisserand, A. Cebron, M. -P. Turpault, et al.. Specific impacts of beech and Norway spruce on the structure and diversity of the rhizosphere and soil microbial communities. Scientific Reports, Nature Publishing Group, 2016, 6 (1), pp.1-11. ⟨10.1038/srep27756⟩. ⟨hal-01579579⟩
  • Océane Nicolitch-Café, Yannick Colin, Marie-Pierre Turpault, Stéphane Uroz. Soil type determines the distribution of nutrient mobilizing bacterial communities in the rhizosphere of beech trees. Soil Biology and Biochemistry, Elsevier, 2016, 103, pp.429-445. ⟨10.1016/j.soilbio.2016.09.018⟩. ⟨hal-01490771⟩
  • Aurélie Deveau, Sanjay Antony-Babu, François Le Tacon, Christophe Robin, Pascale Frey-Klett, et al.. Temporal changes of bacterial communities in the Tuber melanosporum ectomycorrhizosphere during ascocarp development. Mycorrhiza, Springer Verlag, 2016, 26 (5), pp.389-399. ⟨10.1007/s00572-015-0679-7⟩. ⟨hal-01477465⟩
  • L. Kelly, Yannick Colin, M-P. Turpault, Stephane Uroz. Mineral Type and Solution Chemistry Affect the Structure and Composition of Actively Growing Bacterial Communities as Revealed by Bromodeoxyuridine Immunocapture and 16S rRNA Pyrosequencing. Microbial Ecology, Springer Verlag, 2016, 72 (2), pp.428-442. ⟨10.1007/s00248-016-0774-0⟩. ⟨hal-02916112⟩
  • Stéphane Uroz, Marc Buee, Aurélie Deveau, Sophie Mieszkin, Francis Martin. Ecology of the forest microbiome: Highlights of temperate and boreal ecosystems. Soil Biology and Biochemistry, Elsevier, 2016, 103, pp.471-488. ⟨10.1016/j.soilbio.2016.09.006⟩. ⟨hal-01490075⟩
  • M. Jeanbille, M. Buee, C. Bach, A. Cebron, P. Frey-Klett, et al.. Soil Parameters Drive the Structure, Diversity and Metabolic Potentials of the Bacterial Communities Across Temperate Beech Forest Soil Sequences. Microbial Ecology, Springer Verlag, 2016, 71 (2), pp.482-493. ⟨10.1007/s00248-015-0669-5⟩. ⟨hal-01579572⟩
  • Stephane Uroz, Phil Oger. Draft Genome Sequence of Burkholderia sp. Strain PML1(12), an Ectomycorrhizosphere-Inhabiting Bacterium with Effective Mineral-Weathering Ability. Genome Announcements, American Society for Microbiology, 2015, 3 (4), ⟨10.1128/genomeA.00798-15⟩. ⟨hal-02916120⟩
  • Stephane Uroz, Laura Catherine Kelly, Marie-Pierre Turpault, Cendrella Lepleux, Pascale Frey-Klett. The Mineralosphere Concept: Mineralogical Control of the Distribution and Function of Mineral-associated Bacterial Communities. Trends in Microbiology, Elsevier, 2015, 23 (12), pp.751 - 762. ⟨10.1016/j.tim.2015.10.004⟩. ⟨hal-01577955⟩
  • Bruce C. Thomson, Emilie Tisserant, Pierre Plassart, Stéphane Uroz, Rob I. Griffiths, et al.. Soil conditions and land use intensification effects on soil microbial communities across a range of European field sites. Soil Biology and Biochemistry, Elsevier, 2015, 88, pp.403-413. ⟨10.1016/j.soilbio.2015.06.012⟩. ⟨hal-01269419⟩
  • S. Uroz, A. Bispo, M. Buee, A. Cebron, J. Cortet, et al.. Highlights on progress in forest soil biology. Revue forestière française, AgroParisTech, 2014, Hors série (2014), 8 p. ⟨10.4267/2042/56266⟩. ⟨hal-01198683⟩
  • Stéphane Uroz, Antonio Bispo, M. Buée, Aurélie Noémie Candice Cebron, J. Cortet, et al.. Aperçu des avancées dans le domaine de la biologie des sols forestiers. Revue forestière française, AgroParisTech, 2014, LXVI (4), pp.467-478. ⟨10.4267/2042/56560⟩. ⟨hal-02601314⟩
  • Stéphane Uroz, J. J. Tech, N. A. Sawaya, Pascale Frey-Klett, J. H. J. Leveau. Structure and function of bacterial communities in ageing soils: Insights from the Mendocino ecological staircase. Soil Biology and Biochemistry, Elsevier, 2014, 69, pp.265-274. ⟨10.1016/j.soilbio.2013.11.002⟩. ⟨hal-01268570⟩
  • Sanjay Antony-Babu, Aurélie Deveau, Joy D. van Nostrand, Jizhong Zhou, François Le Tacon, et al.. Black truffle-associated bacterial communities during the development and maturation of Tuber melanosporum ascocarps and putative functional roles.. Environmental Microbiology, Society for Applied Microbiology and Wiley-Blackwell, 2014, 16 (9), pp.2831-2847. ⟨10.1111/1462-2920.12294⟩. ⟨hal-01270208⟩
  • Aurélie Deveau, Sanjay Antony-Babu, Christophe Robin, François Le Tacon, Stéphane Uroz, et al.. Les bactéries, des partenaires méconnus de la truffe. Le Trufficulteur Français, Fédération Française des Trufficulteurs, 2014, 87 (2), pp.16. ⟨hal-02639023⟩
  • Vincent Hervé, Xavier Le Roux, Stéphane Uroz, Éric Gelhaye, Pascale Frey-Klett. Diversity and structure of bacterial communities associated with Phanerochaete chrysosporium during wood decay. Environmental Microbiology, Society for Applied Microbiology and Wiley-Blackwell, 2014, 16 (7), ⟨10.1111/1462-2920.12347⟩. ⟨hal-01010621⟩
  • Stéphane Uroz, Panos Ioannidis, Juliette Lengelle, Aurélie Cébron, Emmanuelle Morin, et al.. Functional Assays and Metagenomic Analyses Reveals Differences between the Microbial Communities Inhabiting the Soil Horizons of a Norway Spruce Plantation. PLoS ONE, Public Library of Science, 2013, 8 (2), ⟨10.1371/journal.pone.0055929⟩. ⟨hal-01119698⟩
  • 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⟩
  • Cendrella Lepleux, Stéphane Uroz, Christelle Collignon, Jean-Louis Churin, Marie-Pierre Turpault, et al.. A short-term mineral amendment impacts the mineral weathering bacterial communities in an acidic forest soil. Research in Microbiology, Elsevier, 2013, 164 (7), pp.729 - 739. ⟨10.1016/j.resmic.2013.03.022⟩. ⟨hal-01268300⟩
  • Stéphane Uroz, Pierre-Emmanuel Courty, J-Claude Pierrat, M. Peter, Marc Buee, et al.. Functional Profiling and Distribution of the Forest Soil Bacterial Communities Along the Soil Mycorrhizosphere Continuum. Microbial Ecology, Springer Verlag, 2013, 66 (2), pp.404 - 415. ⟨10.1007/s00248-013-0199-y⟩. ⟨hal-01001500⟩
  • Christophe Calvaruso, Marie-Pierre Turpault, Pascale Frey-Klett, Stéphane Uroz, Marie-Claire Pierret, et al.. Increase of apatite dissolution rate by Scots pine roots associated or not with Burkholderia glathei PML1(12)Rp in open-system flow microcosms. Geochimica et Cosmochimica Acta, Elsevier, 2013, 106, pp.287 - 306. ⟨10.1016/j.gca.2012.12.014⟩. ⟨hal-01268141⟩
  • Sanjay Antony-Babu, Chloé Murat, Jean-Pierre Deveaux, François Le Tacon, Pascale Frey-Klett, et al.. An improved method compatible with metagenomic analyses to extract genomic DNA from soils in Tuber melanosporum orchards. Journal of Applied Microbiology, Wiley, 2013, 115 (1), pp.163 - 170. ⟨10.1111/jam.12205⟩. ⟨hal-01268072⟩
  • Stephane Uroz, Panos Ioannidis, Juliette Lengellé, Aurélie Cebron, Emmanuelle Morin, et al.. Functional Assays and Metagenomic Analyses Reveals Differences between the Microbial Communities Inhabiting the Soil Horizons of a Norway Spruce Plantation. PLoS ONE, Public Library of Science, 2013, 8 (2), pp.e55929. ⟨10.1371/journal.pone.0055929⟩. ⟨hal-02916133⟩
  • C. Lepleux, M. Turpault, P. Oger, P. Frey-Klett, Stephane Uroz. Correlation of the Abundance of Betaproteobacteria on Mineral Surfaces with Mineral Weathering in Forest Soils. Applied and Environmental Microbiology, American Society for Microbiology, 2012, 78 (19), pp.7114-7119. ⟨10.1128/AEM.00996-12⟩. ⟨hal-02916134⟩
  • Stephane Uroz, P. Oger, E. Morin, P. Frey-Klett. Distinct Ectomycorrhizospheres Share Similar Bacterial Communities as Revealed by Pyrosequencing-Based Analysis of 16S rRNA Genes. Applied and Environmental Microbiology, American Society for Microbiology, 2012, 78 (8), pp.3020-3024. ⟨10.1128/AEM.06742-11⟩. ⟨hal-02916135⟩
  • Stéphane Uroz, P. Oger, Emmanuelle Morin, P. Frey-Klett. Distinct Ectomycorrhizospheres Share Similar Bacterial Communities as Revealed by Pyrosequencing-Based Analysis of 16S rRNA Genes. Applied and Environmental Microbiology, American Society for Microbiology, 2012, 78 (8), pp.3020 - 3024. ⟨10.1128/AEM.06742-11⟩. ⟨hal-01268355⟩
  • Stephane Uroz, M. Turpault, C. Delaruelle, L. Mareschal, J.-C. Pierrat, et al.. Minerals Affect the Specific Diversity of Forest Soil Bacterial Communities. Geomicrobiology Journal, Taylor & Francis, 2012, 29 (1), pp.88-98. ⟨10.1080/01490451.2010.523764⟩. ⟨hal-02916136⟩
  • Stéphane Uroz, Marie-Pierre Turpault, Christine Delaruelle, Louis Mareschal, J-Claude Pierrat, et al.. Minerals Affect the Specific Diversity of Forest Soil Bacterial Communities. Geomicrobiology Journal, Taylor & Francis, 2012, 29 (1), pp.88 - 98. ⟨10.1080/01490451.2010.523764⟩. ⟨hal-01053135⟩
  • C. Lepleux, M. Turpault, Phil M. Oger, P. Frey-Klett, S. Uroz. Correlation of the Abundance of Betaproteobacteria on Mineral Surfaces with Mineral Weathering in Forest Soils. Applied and Environmental Microbiology, American Society for Microbiology, 2012, 78 (19), pp.7114-7119. ⟨10.1128/AEM.00996-12⟩. ⟨hal-02122800⟩
  • Stéphane Uroz, Philippe Oger, Cendrella Lepleux, Christelle Collignon, Pascale Frey-Klett, et al.. Bacterial weathering and its contribution to nutrient cycling in temperate forest ecosystems. Research in Microbiology, Elsevier, 2011, 162 (9), pp.820-831. ⟨10.1016/j.resmic.2011.01.013⟩. ⟨insu-00682028⟩
  • S. Uroz, R. Marmeisse, M. Buee, Y. Dessaux, D. Faure, et al.. De la diversité à la fonction des Sols peu anthropisés. Biofutur, 2011, pp.39-43. ⟨hal-02958002⟩
  • Christophe Calvaruso, Marie-Pierre Turpault, Stéphane Uroz, Elisabeth Leclerc, Antoine Kies, et al.. Laccaria bicolor S238N improves Scots pine mineral nutrition by increasing root nutrient uptake from soil minerals but does not increase mineral weathering (vol 328, pg 145, 2010). Plant and Soil, Springer Verlag, 2011, 346 (1-2), pp.401 - 401. ⟨10.1007/s11104-011-0915-7⟩. ⟨hal-02643917⟩
  • Angéla Cusano, Peter Burlinson, Aurélie Deveau, Patrice Vion, Stéphane Uroz, et al.. Pseudomonas fluorescens BBc6R8 type III secretion mutants no longer promote ectomycorrhizal symbiosis. Environmental Microbiology Reports, Wiley, 2011, 3 (2), pp.203-210. ⟨10.1111/j.1758-2229.2010.00209.x⟩. ⟨hal-02650375⟩
  • Stephane Uroz, M.-P. Turpault, L. van Scholl, B. Palin, P. Frey-Klett. Long term impact of mineral amendment on the distribution of the mineral weathering associated bacterial communities from the beech Scleroderma citrinum ectomycorrhizosphere. Soil Biology and Biochemistry, Elsevier, 2011, 43 (11), pp.2275-2282. ⟨10.1016/j.soilbio.2011.07.010⟩. ⟨hal-02916138⟩
  • C. Collignon, Stephane Uroz, M-P. Turpault, P. Frey-Klett. Seasons differently impact the structure of mineral weathering bacterial communities in beech and spruce stands. Soil Biology and Biochemistry, Elsevier, 2011, 43 (10), pp.2012-2022. ⟨10.1016/j.soilbio.2011.05.008⟩. ⟨hal-02916140⟩
  • Stéphane Uroz, Pascale Frey-Klett. Linking diversity to function: highlight on the mineral weathering bacteria. Central European Journal of Biology, Springer Verlag, 2011, 6 (5), pp.817-820. ⟨10.2478/s11535-011-0053-5⟩. ⟨hal-02644684⟩
  • Stéphane Uroz, Roland Marmeisse, Marc Buee, Yves Dessaux, Denis Faure, et al.. Diversity to the function of low soil anthropised. Biofutur, Elsevier - Cachan : Lavoisier, 2011, pp.39 - 43. ⟨hal-02642096⟩
  • Christophe Calvaruso, Marie-Pierre Turpault, Elisabeth Leclerc, Jacques Ranger, Jean Garbaye, et al.. Influence of forest trees on the distribution of mineral weathering-associated bacterial communities of the scleroderma citrinum mycorrhizosphere. Applied and Environmental Microbiology, American Society for Microbiology, 2010, 76 (14), pp.4780-4787. ⟨10.1128/AEM.03040-09⟩. ⟨hal-02668615⟩
  • Pierre-Emmanuel Courty, Marc Buee, Abdala Gamby Diedhiou, Pascale Frey-Klett, François Le Tacon, et al.. The role of ectomycorrhizal communities in forest ecosystem processes: New perspectives and emerging concepts. Soil Biology and Biochemistry, Elsevier, 2010, 42 (5), pp.679-698. ⟨10.1016/j.soilbio.2009.12.006⟩. ⟨hal-02663834⟩
  • Christophe Calvaruso, Marie-Pierre Turpault, Stéphane Uroz, Elisabeth Leclerc, Antoine Kies, et al.. Laccaria bicolor S238N improves Scots pine mineral nutrition by increasing root nutrient uptake from soil minerals but does not increase mineral weathering. Plant and Soil, Springer Verlag, 2010, 328 (1-2), pp.145-154. ⟨10.1007/s11104-009-0092-0⟩. ⟨hal-02658161⟩
  • Johan H. J. Leveau, Stéphane Uroz, Wietse de Boer. The bacterial genus Collimonas: Mycophagy, weathering and other adaptive solutions to life in oligotrophic soil environments. Environmental Microbiology, Society for Applied Microbiology and Wiley-Blackwell, 2010, 12 (2), pp.281-292. ⟨10.1111/j.1462-2920.2009.02010.x⟩. ⟨hal-02658848⟩
  • Stéphane Uroz, Marc Buee, Claude Murat, Pascale Frey-Klett, Francis Martin. Pyrosequencing reveals a contrasted bacterial diversity between oak rhizosphere and surrounding soil. Environmental Microbiology Reports, Wiley, 2010, 2 (2), pp.281-288. ⟨10.1111/j.1758-2229.2009.00117.x⟩. ⟨hal-02667042⟩
  • Nina Koele, Marie-Pierre Turpault, Ernst E. Hildebrand, Stéphane Uroz, Pascale Frey-Klett. Interactions between mycorrhizal fungi and mycorrhizosphere bacteria during mineral weathering: Budget analysis and bacterial quantification. Soil Biology and Biochemistry, Elsevier, 2009, 41 (9), pp.1935-1942. ⟨10.1016/j.soilbio.2009.06.017⟩. ⟨hal-02657805⟩
  • Stéphane Uroz, Christophe Calvaruso, Marie-Pierre Turpault, Alain Sarniguet, Wietse de Boer, et al.. Efficient mineral weathering is a distinctive functional trait of the bacterial genus Collimonas. Soil Biology and Biochemistry, Elsevier, 2009, 41 (10), pp.2178-2186. ⟨10.1016/j.soilbio.2009.07.031⟩. ⟨hal-02659896⟩
  • Stéphane Uroz, Christophe Calvaruso, Marie-Pierre Turpault, Pascale Frey-Klett. Mineral weathering by bacteria: ecology, actors and mechanisms. Trends in Microbiology, Elsevier, 2009, 17 (8), pp.378-387. ⟨10.1016/j.tim.2009.05.004⟩. ⟨hal-02659297⟩
  • Stéphane Uroz, Yves Dessaux, Phil M. Oger. Quorum Sensing and Quorum Quenching: The Yin and Yang of Bacterial Communication: The Yin and Yang of bacterial communication. ChemBioChem, Wiley-VCH Verlag, 2009, 10 (2), pp.205-216. ⟨10.1002/cbic.200800521⟩. ⟨hal-02122861⟩
  • Marc Buee, Marlis Reich, Claude Murat, Emmanuelle Morin, R.H. Nilsson, et al.. 454 Pyrosequencing analyses of forest soils reveal an unexpectedly high fungal diversity. New Phytologist, Wiley, 2009, 184 (2), pp.449-456. ⟨10.1111/j.1469-8137.2009.03003.x⟩. ⟨hal-02667034⟩
  • Stéphane Uroz, Phil M. Oger, Emilie Chapelle, Marie-Thérèse Adeline, Denis Faure, et al.. A Rhodococcus qsdA-Encoded Enzyme Defines a Novel Class of Large-Spectrum Quorum-Quenching Lactonases. Applied and Environmental Microbiology, American Society for Microbiology, 2008, 74 (5), pp.1357-1366. ⟨10.1128/AEM.02014-07⟩. ⟨hal-02665934⟩
  • S. Uroz, Philippe Oger, E. Chapelle, M.-T. Adeline, D. Faure, et al.. A Rhodococcus qsdA-encoded enzyme defines a novel class of large-spectrum quorum-quenching lactonases.. Applied and Environmental Microbiology, American Society for Microbiology, 2008, 74, pp.1357-1366. ⟨hal-00342712⟩
  • Stéphane Uroz, Jussi Heinonsalo. Degradation of N-acyl homoserine lactone quorum sensing signal molecules by forest root-associated fungi. FEMS Microbiology Ecology, Wiley-Blackwell, 2008, 65 (2), pp.271-278. ⟨10.1111/j.1574-6941.2008.00477.x⟩. ⟨hal-02656843⟩
  • François Rineau, Pierre-Emmanuel Courty, Stéphane Uroz, Marc Buee, Jean Garbaye. Simple microplate assays to measure iron mobilization and oxalate secretion by ectomycorrhizal tree roots. Soil Biology and Biochemistry, Elsevier, 2008, 40 (9), pp.2460-2463. ⟨10.1016/j.soilbio.2008.03.012⟩. ⟨hal-02661229⟩
  • Jacques Ranger, Dominique Gelhaye, Séverine Bienaime, M. Bonneau, Pascal Bonnaud, et al.. Effet de la substitution d'essence sur le fonctionnement et la durabilité des écosystèmes forestiers : l'apport des travaux pluridisciplinaires menés en forêt de Breuil Chenue - Morvan. Bourgogne Nature, Maison du Parc naturel régional du Morvan, 2007, pp.45-68. ⟨hal-02664164⟩
  • Stéphane Uroz, Christophe Calvaruso, Marie-Pierre Turpault, J-Claude Pierrat, C Mustin, et al.. Effect of the Mycorrhizosphere on the Genotypic and Metabolic Diversity of the Bacterial Communities Involved in Mineral Weathering in a Forest Soil. Applied and Environmental Microbiology, American Society for Microbiology, 2007, 73 (9), pp.3019-3027. ⟨10.1128/AEM.00121-07⟩. ⟨hal-01195006⟩
  • Stéphane Uroz, Yves Dessaux, Philippe Oger, Siri Ram Chhabra, Miguel Cámara, et al.. N-acyl homoserine lactones are degraded via an amidolytic activity in Comamonas sp. strain D1.. Archives of Microbiology, Springer Verlag, 2006, 187 (3), pp.249-256. ⟨10.1007/s00203-006-0186-5⟩. ⟨hal-00119105⟩
  • Laurie Delalande, Denis Faure, Aurélie Raffoux, Stéphane Uroz, Cathy d'Angelo-Picard, et al.. N-hexanoyl-l-homoserine lactone,a mediator of bacterial quorum-sensing regulation,exhibits plant-dependent stability and may be inactivated by germinating Lotus corniculatus seedlings.. FEMS Microbiology Ecology, Wiley-Blackwell, 2005, 52, pp.13-20. ⟨10.1016/j.femsec.2004.10.005⟩. ⟨hal-00019093⟩
  • Stéphane Uroz, Siri Ram Chhabra, Miguel Cámara, Paul Williams, Philippe Oger, et al.. N-Acylhomoserine lactone quorum-sensing molecules are modified and degraded by Rhodococcus erythropolis W2 by both amidolytic and novel oxidoreductase activities.. Microbiology, Microbiology Society, 2005, 151 (10), pp.3313-3322. ⟨10.1099/mic.0.27961-0⟩. ⟨hal-00019097⟩
  • Cathy d'Angelo-Picard, Denis Faure, Aurélien Carlier, Stéphane Uroz, Aurélie Raffoux, et al.. Bacterial populations in the rhizosphere of tobacco plants producing the quorum-sensing signals hexanoyl-homoserine lactone and 3-oxo-hexanoyl-homoserine lactone.. FEMS Microbiology Ecology, Wiley-Blackwell, 2004, 51 (1), pp.19-29. ⟨10.1016/j.femsec.2004.07.008⟩. ⟨hal-00122912⟩
  • Stéphane Uroz, Cathy d'Angelo-Picard, Aurélien Carlier, Miena Elasri, Carine Sicot, et al.. Novel bacteria degrading N-acylhomoserine lactones and their use as quenchers of quorum-sensing-regulated functions of plant-pathogenic bacteria.. Microbiology, Microbiology Society, 2003, 149 (8), pp.1981-1989. ⟨10.1099/mic.0.26375-0⟩. ⟨hal-00135468⟩
  • A. Carlier, Stephane Uroz, B. Smadja, R. Fray, X. Latour, et al.. The Ti Plasmid of Agrobacterium tumefaciens Harbors an attM-Paralogous Gene, aiiB, Also Encoding N-Acyl Homoserine Lactonase Activity. Applied and Environmental Microbiology, American Society for Microbiology, 2003, 69 (8), pp.4989-4993. ⟨10.1128/AEM.69.8.4989-4993.2003⟩. ⟨hal-02921665⟩

Book sections5 documents

  • John Tolan van Stan, Cindy E. Morris, K Aung, Y Kuzyakov, D Magyar, et al.. Precipitation partitioning - Hydrologic highways between microbial communities of the plant microbiome?. van Stan John Toland; Gutmann Ethan; Friesen Jan. Precipitation partitioning by vegetation, Springer Nature, pp.229-251, 2020, 978-3-030-29701-5. ⟨10.1007/978-3-030-29702-2_14⟩. ⟨hal-02389738⟩
  • Laure Fauchery, Stéphane Uroz, Marc Buee, Annegret Kohler. Purification of Fungal High Molecular Weight Genomic DNA from Environmental Samples. Fungal Genomics, 1775 (Chapter 3), Humana Press, New York, NY, 2018, Methods in Molecular Biology, 978-1-4939-7803-8. ⟨10.1007/978-1-4939-7804-5_3⟩. ⟨hal-01891732⟩
  • Stéphane Uroz, Phil M. Oger. Screening for N-AHSL-Based-Signaling Interfering Enzymes. METAGENOMICS: METHODS AND PROTOCOLS, 1539 (Chapter 18), Editions Springer, 15 p., 2017, Methods in Molecular Biology, 978-1-4939-6689-9. ⟨10.1007/978-1-4939-6691-2_18⟩. ⟨hal-01688921⟩
  • Francis Martin, Stéphane Uroz. Preface. Microbial Environmental Genomics (MEG), 1399, Editions Springer, 321 p., 2016, Methods in Molecular Biology, 978-1-4939-3369-3 978-1-4939-3367-9. ⟨hal-02792541⟩
  • Stéphane Uroz, Phil M. Oger. Screening for N-AHSL-Based-Signaling Interfering Enzymes. Metagenomics. Methods in Molecular Biology (Methods and Protocols), pp.203-217, 2010. ⟨hal-02122828⟩

Conference papers11 documents

  • Nilesh N. Maharaj, Eugene M. Miyao, R. Michael Davis, Stéphane Uroz, Johan H. J. Leveau. Impact of soil chemistry, nutrient supplements, and fungicides on the health and yield of field-grown processing tomatoes. oint Conference of the 12th Conference of the European-Foundation-for-Plant-Pathology (EFPP), European foundation for plant pathology.; French Society for Phytopathology., May 2017, Dordrecht, France. pp.14, ⟨10.1007/s10658-018-1572-y⟩. ⟨hal-02736999⟩
  • 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⟩
  • Aurélie Deveau, Richard Splivallo, Béatrice Palin, Océane Nicolitch, Annegret Kohler, et al.. Black truffles as a model in microbial ecology to analyse fungal-bacterial interactions. 16th International Symposium on Microbial Ecology, Aug 2016, Montreal, Canada. ⟨hal-02948271⟩
  • Marie-Pierre Turpault, Christophe Calvaruso, Stéphane Uroz, Paul Olivier Redon, Gil Kirchen. Effect of soil type on the beech fine root distribution. Rhizosphere 4 congress, Jun 2015, Maastricht, Netherlands. ⟨hal-01269130⟩
  • Stéphane Uroz, Marc Buee, Aurélie Cébron, Wietse de Boer, Pascale Frey-Klett, et al.. Contribution of metagenomics to the study of mineral weathering bacterial communities in forest soils. MEM days (Meta’omics of the microbial ecosystems), 2014, Paris, France. ⟨hal-02796164⟩
  • L-C. Kelly, Stéphane Uroz, Marie-Pierre Turpault. Characterisation of Active Forest Soil Bacteria during Mineral Weathering. Goldschmidt, Aug 2013, Florence, Italy. ⟨hal-01269132⟩
  • Cendrella Lepleux, Marie-Pierre Turpault, P. Oger, Pascale Frey-Klett, Stéphane Uroz. Combination of culture-independent and dependent approach reveals positive correlation between abundance of Beta-proteobacteria and mineral weathering in nutrient-poor forest soil. 14. International Symposium on Microbial Ecology (ISME14) "The Power of the Small", Aug 2012, Coppenague, Danemark. ⟨hal-02745200⟩
  • 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⟩
  • Stéphane Uroz, Marie-Pierre Turpault, P. Oger, Christelle Collignon, Wietse de Boer, et al.. Identification et suivi des bactéries et gènes impliqués dans l’altération des minéraux et la fertilité des sols forestiers. Colloque FRB 2011, Sep 2011, Montpellier, France. ⟨hal-02744770⟩
  • Marie-Pierre Turpault, Stéphane Uroz, Christophe Calvaruso, Christelle Collignon, Louis Mareschal, et al.. Life as the catalyst of mineral weathering in acidic forest ecosystem. Goldschmidt 2011, Aug 2011, Prague, Czech Republic. ⟨hal-02744525⟩
  • Stéphane Uroz, Marc Buee, Francis Martin, Aurore Coince, Claude Murat, et al.. Metagenomics of the forest soil microbiome: from diversity to function. 1. EcoFINDERS WP3 workshop : 'Strategies and tools for sampling, DNA extraction, DNA sequencing and bioinformatics, 2011, Nancy, France. ⟨hal-02804475⟩

Poster communications10 documents

  • François Thomas, Nolwen Le Duff, Pascal Riera, Aurélie Cébron, Cédric Leroux, et al.. Exploration de la diversité des bactéries marines dégradant les macroalgues par marquage isotopique. IXème colloque AFEM, Nov 2019, Bussang, France. ⟨hal-03145502⟩
  • Sophie Mieszkin, Perrine Richet, Catherine Lambrot, Cyrille Bach, Laurent Augusto, et al.. Diversité taxonomique et fonctionnelle des communautés bactériennes colonisant le duramen et l’aubier du chêne sessile (Quercus petraea) en decomposition. IXe Colloque de l'Association Francophone d'Ecologie Microbienne, Nov 2019, Bussang, France. ⟨hal-03340841⟩
  • Laure Fauchery, Igor V. Grigoriev, Stéphane Uroz, Marc Buée, Annegret Kohler, et al.. Optimisation des méthodes de purification de l’ADN fongique de haute qualité pour le séquençage. IXe Colloque de l'Association Francophone d'Ecologie Microbienne, Bussang, Nov 2019, Bussang, France. ⟨hal-03340857⟩
  • Antoine Sportes, Raphael Boussageon, Diederik van Tuinen, Daniel Wipf, Claude Plassart, et al.. Coopération entre des bactéries solubilisatrices de phosphate et le champignon mycorhizien à arbuscule Rhizophagus irregularis dans la nutrition phosphatée de la pomme de terre. IX. Colloque de l'Association Francophone d'Ecologie Microbienne, AFEM 2019, Fonctions et diversité des microbiotes dans les environnements naturels et anthropisés, Nov 2019, Bussang, France. 2019. ⟨hal-02737605⟩
  • Sophie Mieszkin, P. Richet, Cyrille Bach, Catherine Lambrot, Laurent Augusto, et al.. L'aubier et le duramen de chêne sélectionnent des communautés bactériennes taxonomiquement et fonctionnellement différentes au cours de leur décomposition. IXe Colloque de l'Association Francophone d'Ecologie Microbienne (AFEM), Nov 2019, Bussang, France. ⟨hal-03194922⟩
  • Stéphane Uroz, Phil Oger, Emilie Tisserand, Aurélie Cébron, Marie-Pierre Turpault, et al.. Forest tree species shape their soil microbiome. Rhizosphere 4 congress, Jun 2015, Maastricht, Netherlands. 2015. ⟨hal-02800245⟩
  • Stéphane Uroz, Phil Oger, Emilie Tisserand, Aurélie Cébron, Marie-Pierre Turpault, et al.. Forest tree species shape their soil microbiome. 1. Global Soil Biodiversity Conference : Assessing Soil Biodiversity and its Role for Ecosystem Services, Dec 2014, Dijon, France. 2014. ⟨hal-02796803⟩
  • Océane Nicolitch-Café, Mathilde Jeanbille, Marc Buee, Yannick Colin, Marie-Pierre Turpault, et al.. Impact of soil type on the structure of the microbial communities: Insights from the Montiers-sur-Saulx soil succession. 1. Global Soil Biodiversity Conference : Assessing Soil Biodiversity and its Role for Ecosystem Services, Dec 2014, Dijon, France. 2014. ⟨hal-02792897⟩
  • Cendrella Lepleux, Stéphane Uroz, Marie-Pierre Turpault, P. Oger, Pascale Frey-Klett. Caractérisation taxonomique et fonctionnelle des communautés bactériennes associées à la surface des minéraux : Combinaison d’approches non-cultivable et cultivable. Congrès Ecole Thématique Expert Génomique Environnementale (ETEGE), 2012, Aussois, France. 2012. ⟨hal-02805606⟩
  • Cendrella Lepleux, Stéphane Uroz, Marie-Pierre Turpault, Pascale Frey-Klett. Taxonomic and functional characterization of the mineral associated bacterial communities in forest soil. Ecology of soil microorganisms: Microbes as important drivers of the soil processes, Apr 2011, Prague, Czech Republic. 2011. ⟨hal-02804405⟩

Other publications1 document

  • Stéphane Uroz, Aurélie Deveau, Francis Martin, Aurélie Cébron. Le charme discret... de la racine. 2018, pp.Hors série n°101. ⟨hal-03219046⟩