Publications HAL de nicol de la collection AMPERE

Journal articles

2023

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Gaofeng Ni, Pok Man Leung, Anne Daebeler, Jianhua Guo, Shihu Hu, et al.. Nitrification in acidic and alkaline environments. Essays in Biochemistry, 2023, 67 (4), pp.753-768. ⟨10.1042/EBC20220194⟩. ⟨hal-04311063⟩
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2022

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Evangelia Papadopoulou, Eleftheria Bachtsevani, Christina Papazlatani, Constantina Rousidou, Antonios Brouziotis, et al.. The Effects of Quinone Imine, a New Potent Nitrification Inhibitor, Dicyandiamide, and Nitrapyrin on Target and Off-Target Soil Microbiota. Microbiology Spectrum, 2022, 10 (4), ⟨10.1128/spectrum.02403-21⟩. ⟨hal-03845428⟩
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Yu-Jia Cai, Zi-Ao Liu, Sha Zhang, Hao Liu, Graeme W. Nicol, et al.. Microbial community structure is stratified at the millimeter-scale across the soil–water interface. ISME Communications, 2022, 2 (1), pp.53. ⟨10.1038/s43705-022-00138-z⟩. ⟨hal-03721059⟩
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Sungeun Lee, Jackson Sorensen, Robin Walker, Joanne Emerson, Graeme W. Nicol, et al.. Soil pH influences the structure of virus communities at local and global scales. Soil Biology and Biochemistry, 2022, 166 (2), pp.108569. ⟨10.1016/j.soilbio.2022.108569⟩. ⟨hal-04075705⟩
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Sungeun Lee, Ella Sieradzki, Graeme Nicol, Christina Hazard. Propagation of viral genomes by replicating ammonia-oxidising archaea during soil nitrification. The International Society of Microbiologial Ecology Journal, In press, ⟨10.1038/s41396-022-01341-5⟩. ⟨hal-03872694⟩
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2021

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Damien Finn, Benoît Bergk-Pinto, Christina Hazard, Graeme W. Nicol, Christoph Tebbe, et al.. Functional trait relationships demonstrate life strategies in terrestrial prokaryotes. FEMS Microbiology Ecology, 2021, 97 (5), ⟨10.1093/femsec/fiab068⟩. ⟨hal-03411983⟩
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Lisa Stein, Martin Klotz, Kyle Lancaster, Graeme W. Nicol, Wei Qin, et al.. Comment on“A Critical Review on Nitrous Oxide Production by Ammonia-Oxidizing Archaea” by Lan Wu, Xueming Chen, Wei Wei, Yiwen Liu, Dongbo Wang, and Bing-Jie Ni. Environmental Science and Technology, 2021, 55 (1), pp.797-798. ⟨10.1021/acs.est.0c06792⟩. ⟨hal-03100724⟩
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Christina Hazard, James I Prosser, Graeme W Nicol. Use and abuse of potential rates in soil microbiology. Soil Biology and Biochemistry, 2021, 157, pp.108242. ⟨10.1016/j.soilbio.2021.108242⟩. ⟨hal-03412000⟩
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Damien Finn, Sungeun Lee, Anders Lanzén, Michel Bertrand, Graeme W. Nicol, et al.. Cropping systems impact changes in soil fungal, but not prokaryote, alpha-diversity and community composition stability over a growing season in a long-term field trial. FEMS Microbiology Ecology, 2021, 97 (10), ⟨10.1093/femsec/fiab136⟩. ⟨hal-03411956⟩
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Franciska Vries, Cécile Thion, Michael Bahn, Benoît Bergk Pinto, Sébastien Cécillon, et al.. Glacier forelands reveal fundamental plant and microbial controls on short‐term ecosystem N retention. Journal of Ecology, 2021, 109 (10), pp.3710-3723. ⟨10.1111/1365-2745.13748⟩. ⟨hal-03411964⟩
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Eleftheria Bachtsevani, Christina Papazlatani, Constantina Rousidou, Eleni Lampronikou, Urania Menkissoglu-Spiroudi, et al.. Effects of the nitrification inhibitor 3,4-dimethylpyrazole phosphate (DMPP) on the activity and diversity of the soil microbial community under contrasting soil pH. Biology and Fertility of Soils, In press, ⟨10.1007/s00374-021-01602-z⟩. ⟨hal-03411998⟩
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Sungeun Lee, Ella Sieradzki, Alexa Nicolas, Robin Walker, Mary Firestone, et al.. Methane-derived carbon flows into host–virus networks at different trophic levels in soil. Proceedings of the National Academy of Sciences of the United States of America, 2021, 118 (32), pp.e2105124118. ⟨10.1073/pnas.2105124118⟩. ⟨hal-03411995⟩
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Man-Young Jung, Christopher Sedlacek, K. Dimitri Kits, Anna Mueller, Sung-Keun Rhee, et al.. Ammonia-oxidizing archaea possess a wide range of cellular ammonia affinities. The International Society of Microbiologial Ecology Journal, 2021, ⟨10.1038/s41396-021-01064-z⟩. ⟨hal-03411975⟩
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Gareth Norton, Anthony Travis, Panthita Ruang-Areerate, Graeme W. Nicol, Ayotunde Adeosun, et al.. Genetic loci regulating cadmium content in rice grains. Euphytica, 2021, 217 (3), ⟨10.1007/s10681-020-02752-1⟩. ⟨hal-03411978⟩
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2020

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Pierfrancesco Nardi, Hendrikus Laanbroek, Graeme W. Nicol, Giancarlo Renella, Massimiliano Cardinale, et al.. Biological nitrification inhibition in the rhizosphere: determining interactions and impact on microbially mediated processes and potential applications. FEMS Microbiology Reviews, 2020, 44 (6), pp.874-908. ⟨10.1093/femsre/fuaa037⟩. ⟨hal-03100712⟩
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A. Aigle, C. Gubry‐rangin, C. Thion, K. Estera‐molina, H. Richmond, et al.. Experimental testing of hypotheses for temperature‐ and pH ‐based niche specialization of ammonia oxidizing archaea and bacteria. Environmental Microbiology, 2020, 22 (9), pp.4032-4045. ⟨10.1111/1462-2920.15192⟩. ⟨hal-03100729⟩
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Evangelia Papadopoulou, Eleftheria Bachtsevani, Eleni Lampronikou, Eleni Adamou, Afroditi Katsaouni, et al.. Comparison of Novel and Established Nitrification Inhibitors Relevant to Agriculture on Soil Ammonia- and Nitrite-Oxidizing Isolates. Frontiers in Microbiology, 2020, 11, pp.581283. ⟨10.3389/fmicb.2020.581283⟩. ⟨hal-03100745⟩
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2019

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Zhihui Wang, Yanqiang Cao, Xia Zhu-Barker, Graeme W. Nicol, Alan Wright, et al.. Comammox Nitrospira clade B contributes to nitrification in soil. Soil Biology and Biochemistry, 2019, 135, pp.392-395. ⟨10.1016/j.soilbio.2019.06.004⟩. ⟨hal-03830549⟩
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James I. Prosser, Linda Hink, Cécile Gubry‐rangin, Graeme W. Nicol. Nitrous oxide production by ammonia oxidizers: Physiological diversity, niche differentiation and potential mitigation strategies. Global Change Biology, 2019, 26 (1), pp.103-118. ⟨10.1111/gcb.14877⟩. ⟨hal-02416635⟩
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Graeme W. Nicol, Linda Hink, Cécile Gubry-Rangin, James I. Prosser, Laura Lehtovirta-Morley. Genome Sequence of “ Candidatus Nitrosocosmicus franklandus” C13, a Terrestrial Ammonia-Oxidizing Archaeon. Microbiology Resource Announcements, 2019, 8 (40), ⟨10.1128/MRA.00435-19⟩. ⟨hal-02416637⟩
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2018

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Yaying Li, Stephen Chapman, Graeme W. Nicol, Huaiying Yao. Nitrification and nitrifiers in acidic soils. Soil Biology and Biochemistry, 2018, 116, pp.290-301. ⟨10.1016/j.soilbio.2017.10.023⟩. ⟨hal-01970357⟩
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Linda Hink, Cécile Gubry-Rangin, Graeme W. Nicol, James I. Prosser. The consequences of niche and physiological differentiation of archaeal and bacterial ammonia oxidisers for nitrous oxide emissions. The International Society of Microbiologial Ecology Journal, 2018, 12, pp.1084-1093. ⟨10.1038/s41396-017-0025-5⟩. ⟨hal-01970359⟩
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Xinda Lu, Graeme W. Nicol, Josh Neufeld. Differential responses of soil ammonia-oxidizing archaea and bacteria to temperature and depth under two different land uses. Soil Biology and Biochemistry, 2018, 120, pp.272-282. ⟨10.1016/j.soilbio.2018.02.017⟩. ⟨hal-01968440⟩
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S. Vasileiadis, E. Puglisi, S. Papadopoulou, G. Pertile, N. Suciu, et al.. Blame It on the Metabolite: 3,5-Dichloroaniline Rather than the Parent Compound Is Responsible for the Decreasing Diversity and Function of Soil Microorganisms. Applied and Environmental Microbiology, 2018, 84 (22), ⟨10.1128/AEM.01536-18⟩. ⟨hal-01978387⟩
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2017

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Heiko Nacke, Ingo Schöning, Malte Schindler, Marion Schrumpf, Rolf Daniel, et al.. Links between seawater flooding, soil ammonia oxidiser communities and their response to changes in salinity. FEMS Microbiology Ecology, 2017, 93 (11), ⟨10.1093/femsec/fix144⟩. ⟨hal-01985981⟩
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Pubmed icone : 29069386
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Linda Hink, Graeme W. Nicol, James I. Prosser. Archaea produce lower yields of N 2 O than bacteria during aerobic ammonia oxidation in soil. Environmental Microbiology, 2017, 19 (12), pp.4829-4837. ⟨10.1111/1462-2920.13282⟩. ⟨hal-01985976⟩
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Felix J Elling, Martin Könneke, Graeme W Nicol, Michaela Stieglmeier, Barbara Bayer, et al.. Chemotaxonomic characterisation of the thaumarchaeal lipidome. Environmental Microbiology, 2017, 19, pp.2681-2700. ⟨10.1111/1462-2920.13759⟩. ⟨hal-01970306⟩
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Linda Hink, Pawel Lycus, Cécile Gubry-Rangin, Asa Frostegard, Graeme W. Nicol, et al.. Kinetics of NH3-oxidation, NO-turnover, N2O-production and electron flow during oxygen depletion in model bacterial and archaeal ammonia oxidisers. Environmental Microbiology, 2017, 19 (12), pp.4882-4896. ⟨10.1111/1462-2920.13914⟩. ⟨hal-01970339⟩
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Craig Herbold, Laura Lehtovirta-Morley, Man-Young Jung, Nico Jehmlich, Bela Hausmann, et al.. Ammonia-oxidising archaea living at low pH: Insights from comparative genomics. Environmental Microbiology, 2017, 19 (12), pp.4939-4952. ⟨10.1111/1462-2920.13971⟩. ⟨hal-01970311⟩
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Cécile Gubry-Rangin, Breda Novotnik, Ines Mandič-Mulec, Graeme W. Nicol, James I. Prosser. Temperature responses of soil ammonia-oxidising archaea depend on pH. Soil Biology and Biochemistry, 2017, 106, pp.61 - 68. ⟨10.1016/j.soilbio.2016.12.007⟩. ⟨hal-01588948⟩
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2016

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Qiongli Bao, Yizong Huang, Fenghua Wang, Sanan Nie, Graeme W. Nicol, et al.. Effect of nitrogen fertilizer and/or rice straw amendment on methanogenic archaeal communities and methane production from a rice paddy soil. Applied Microbiology and Biotechnology, 2016, 100 (13), pp.5989 - 5998. ⟨10.1007/s00253-016-7377-z⟩. ⟨hal-01589066⟩
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Laura E. Lehtovirta-Morley, Luis A. Sayavedra-Soto, Nicolas Gallois, Stefan Schouten, Lisa Y. Stein, et al.. Identifying Potential Mechanisms Enabling Acidophily in the Ammonia-Oxidizing Archaeon “Candidatus Nitrosotalea devanaterra”. Applied and Environmental Microbiology, 2016, 82 (9), pp.2608 - 2619. ⟨10.1128/AEM.04031-15⟩. ⟨hal-03906404⟩
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Eduard Vico Oton, Christopher Quince, Graeme W Nicol, James I Prosser, Cécile Gubry-Rangin. Phylogenetic congruence and ecological coherence in terrestrial Thaumarchaeota. The International Society of Microbiologial Ecology Journal, 2016, 10 (1), pp.85 - 96. ⟨10.1038/ismej.2015.101⟩. ⟨hal-01589185⟩
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Laura Lehtovirta-Morley, Jenna Ross, Linda Hink, Eva Weber, Cécile Gubry-Rangin, et al.. Isolation of ‘ Candidatus Nitrosocosmicus franklandus’, a novel ureolytic soil archaeal ammonia oxidiser with tolerance to high ammonia concentration. FEMS Microbiology Ecology, 2016, 92 (5), pp.fiw057. ⟨10.1093/femsec/fiw057⟩. ⟨hal-01986008⟩
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Pubmed icone : 26976843
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2015

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Barbara Stempfhuber, Marion Engel, Doreen Fischer, Ganna Neskovic-Prit, Tesfaye Wubet, et al.. pH as a Driver for Ammonia-Oxidizing Archaea in Forest Soils. Microbial ecology, 2015, 69 (4), pp.879-883. ⟨10.1007/s00248-014-0548-5⟩. ⟨hal-01986023⟩
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Pubmed icone : 25501889
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2014

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Laura Lehtovirta-Morley, Chaorong Ge, Jenna Ross, Huaiying Yao, Graeme W. Nicol, et al.. Characterisation of terrestrial acidophilic archaeal ammonia oxidisers and their inhibition and stimulation by organic compounds. FEMS Microbiology Ecology, 2014, 89 (3), pp.542-552. ⟨10.1111/1574-6941.12353⟩. ⟨hal-01986028⟩
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Pubmed icone : 24909965
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Andrea Bartram, Xingpeng Jiang, Michael D.J. Lynch, Andre Masella, Graeme W. Nicol, et al.. Exploring links between pH and bacterial community composition in soils from the Craibstone Experimental Farm. FEMS Microbiology Ecology, 2014, 87 (2), pp.403-415. ⟨10.1111/1574-6941.12231⟩. ⟨hal-01986062⟩
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Pubmed icone : 24117982
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Conference papers

2019

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Cécile Thion, Petra Pjevac, Holger Daims, Graeme W. Nicol. Earth, air and water – oxygen availability influences comammox activity in soil. BAGECO 15 : Ecosystem drivers in a changing planet, May 2019, Lisbon, Portugal. ⟨hal-02122107⟩
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Sungeun Lee, Christina Hazard, Graeme W. Nicol. Uncovering virus-bacterial host interactions across ecological gradients in soil. BAGECO 15 : Ecosystem drivers in a changing planet, May 2019, Lisbon, Portugal. ⟨hal-02122098⟩
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Graeme W. Nicol. Understanding the relative contribution of comammox bacteria to ammonia oxidation in agricultural soil. 6th International Conference on Nitrification, Oct 2019, Xiamen, China. ⟨hal-02416640⟩
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Sungeun Lee, Ella Sieradzki, Alexa Nicolas, M. K. Firestone, Christina Hazard, et al.. Stable-isotope probing and metagenomic analysis demonstrates individual host-virus interactions in soil methanotroph communities. 4th Thünen Symposium on Soil Metagenomics, Dec 2019, Braunschweig, Germany. ⟨hal-02932198⟩
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2018

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Linda Hink, Yiyu Meng, Christopher Sedlacek, Holger Daims, Michael Wagner, et al.. Physiological and genomic characterisation of an acidotolerant nitrite oxidising bacterium. ISME17, Aug 2018, Leipzig, Germany. ⟨hal-01978429⟩
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Naima Mouhoubi, Anders Lanzén, Graeme W. Nicol, Christina Hazard. Application of organic residues on soils with contrasting nitrogen fertilization differentially impacts the diversity of soil microbial communities. ISME17, Aug 2018, Leipzig, Germany. ⟨hal-01977533⟩
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2015

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Graeme W Nicol. From enigmatic curios to global players: current understanding of the diversity and unique contributions of Archaea to global biogeochemical cycles. Congress of the Society for Molecular Biology and Evolution (SMBE), Jun 2015, Vienne, Austria. ⟨hal-01974622⟩
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Graeme W Nicol. Growing up in a tough neighbourhood: adaptations of ammonia oxidising archaea enabling growth at low pH. ICoN4 - International Conference on Nitrification (and Related Processes), May 2015, Edmonton (Alberta), Canada. ⟨hal-01974653⟩
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Laura E. Lehtovirta-Morley, James I Prosser, Graeme W Nicol. Growing up in a tough neighbourhood: adaptations of ammonia oxidising archaea enabling growth at low pH. BAGECO 13 : The microbial continuity across changing ecosystems, Jun 2015, Milan, Italy. ⟨hal-01974645⟩
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Poster communications

2021

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Sungeun Lee, Christina Hazard, Graeme W. Nicol. Active host-virus interactions associated with nitrifying populations in soil. 7th International Conference on Nitrification and Related Processes (ICoN7), Jul 2021, Logan Utah (virtual), United States. ⟨hal-03726245⟩
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Preprints, Working Papers, ...

2022

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Sungeun Lee, Ella T Sieradzki, Christina Hazard, Graeme W Nicol. Viruses of soil ammonia oxidising archaea identified using a novel DNA stable isotope probing approach for low GC mol% genomes. 2022. ⟨hal-03758945⟩
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2021

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Sungeun Lee, Jackson W Sorensen, Robin L Walker, Joanne B Emerson, Graeme W. Nicol, et al.. Soil viral communities are structured by pH at local and global scales. 2021. ⟨hal-03413481⟩
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Christina Hazard, James Prosser, Graeme W. Nicol. Use and abuse of potential rates in soil microbiology. 2021. ⟨hal-03102500⟩
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