HR Excellence in Science

Dr. Anne Daebeler

Position Head of Laboratory - Microbes CaN cycle
Microbial processes Section
Institute of Soil Biology and Biogeochemistry

Contact details +420 387 77 5164


Research interests

As a microbial ecologist I am interested in the ecological relations between microorganisms and their role in biogeochemical cycles. I want to find out more about the activities and functions of microbes and what their diversity and actions mean for ecosystems. I am particularly interested in microorganisms with activities that link to global change, such as nitrification with it's consequences for N2O emission and eutrophication and methane cycling. I like to combine field work with lab experiments and pair them with omics techniques and culturing.


Curriculum vitae

2021–now    Group leader at the Institute for Soil Biology and Biogeochemistry, Biology Centre CAS

2015–2016    Maternity leave

2013–2020    PostDoc at the Centre for Microbiology and Ecosystem Science, Division of

Microbial Ecology, University of Vienna, AU

2009–2013    Ph.D. student at the Department of Microbial Ecology, Netherlands Institute of Ecology, Wageningen, NL

2009-2009    Research assistant at the Department of Biogeochemistry, Max Planck Institute for Terrestrial Microbiology, Marburg, DE

2002-2009    Diplom studies in Biology with specialisation in ecology and microbiology, Technical University of Dresden, DE


Google scholar



Current projects

Illuminating the interactions between nitrification and methane oxidation and the ensuing ecological impacts (2021-2025, PI)


Like fish out of water? Elucidating the ecophysiology of upland-soil methanogens through cultivation and omics methods (2022-2024, Team member)


Total found: 18 records
Wutkowska M., Daebeler A. (2024) Draft genomes of three aerobic methanotrophs from a temperate eutrophic fishpond Microbiology Resource Announcements 13: 1-4.
DOI: 10.1128/mra.00152-24
Wutkowska M., Tláskal V., Bordel S., Stein L.Y., Nweze J., Daebeler A. (2024) Leveraging genome-scale metabolic models to understand aerobic methanotrophs The ISME Journal 18: wrae102.
DOI: 10.1093/ismejo/wrae102
Daebeler A., Güell-Bujons Q., Mooshammer M., Zechmeister T. , Herbold C.W., Richter A., Wagner M., Daims H. (2023) Rapid nitrification involving comammox and canonical Nitrospira at extreme pH in saline-alkaline lakes Environmental Microbiology 25: 1055–1067.
DOI: 10.1111/1462-2920.16337
Mueller A.J., Daebeler A., Herbold C.W., Kirkegaard R.H., Daims H. (2023) Cultivation and genomic characterization of novel and ubiquitous marine nitrite-oxidizing bacteria from the Nitrospirales The ISME Journal 17: 2123–2133.
DOI: 10.1038/s41396-023-01518-6
Ni G., Leung P.M., Daebeler A., Guo J., Hu S., Cook P., Nicol G.W., Daims H., Greening Ch. (2023) Nitrification in acidic and alkaline environments Essays in Biochemistry 67: 753–768.
DOI: 10.1042/EBC20220194
Daebeler A., Petrová E., Kinz E., Grausenburger S., Berthold H., Sandén T., Angel R. (2022) Pairing litter decomposition with microbial community structures using the Tea Bag Index (TBI) Soil 8: 163–176.
DOI: 10.5194/soil-8-163-2022
Leung P.M., Daebeler A., Chiri E., Hanchapola I., Gillett D.L., Schittenhelm R.B., Daims H., Greening Ch. (2022) A nitrite-oxidising bacterium constitutively consumes atmospheric hydrogen The ISME Journal 16: 2213–2219.
DOI: 10.1038/s41396-022-01265-0
Daebeler A., Kitzinger, K, Koch, H, Herbold C.W., Steinfeder, M, Schwarz, J, Zechmeister T. , Karst, SM, Albertsen, M, Nielsen, PH, Wagner M., Daims H. (2020) Exploring the upper pH limits of nitrite oxidation: diversity, ecophysiology, and adaptive traits of haloalkalitolerant Nitrospira The ISME Journal 14: 2967–2979.
Kitzinger, K, Koch, H, Lücker, S, Sedlacek, CJ, Herbold C.W., Schwarz, J, Daebeler A., Mueller, A, Lukumbuzya, M, Romano, S, Leisch, N, Karst, SM, Kirkegaard R.H., Albertsen, M, Nielsen, PH, Wagner M., Daims H. (2018) Characterization of the first “Candidatus Nitrotoga” isolate reveals metabolic versatility and separate evolution of widespread nitrite-oxidizing bacteria mBio 9: e01186-18.
Daebeler A., Bodelier, PLE, Hefting, MM, Rütting, T, Jia, Z, Laanbroek, HJ (2017) Soil warming and fertilization altered rates of nitrogen transformation processes and selected for adapted ammonia-oxidizing archaea in sub-arctic grassland soil Soil Biology and Biogeochemistry 107: 114–124.
Daebeler A., Herbold C.W., Vierheilig, J, Sedlacek, CJ, Pjevac, P, Albertsen, M, Kirkegaard R.H., de la Torre, J, Daims H., Wagner M. (2017) Cultivation and Genomic Analysis of “Candidatus Nitrosocaldus islandicus,” an Obligately Thermophilic, Ammonia-Oxidizing Thaumarchaeon from a Hot Spring Biofilm in Graendalur Valley, Iceland frontiers in Microbiology 9: 193.
Kits, KD, Sedlacek, CJ, Lebedeva, EV, Han, P, Bulaev, A, Pjevac, P, Daebeler A., Romano, S, Albertsen, M, Stein, LY, Daims H., Wagner M. (2017) Kinetic analysis of a complete nitrifier reveals an oligotrophic lifestyle Nature 549: 269–272.
Pjevac, P, Schauberger, C, Poghosyan, L, Herbold C.W., van Kessel, MAHJ, Daebeler A., Steinberger, M, Jetten, MSM, Lücker, S, Wagner M., Daims H. (2017) AmoA-targeted polymerase chain reaction primers for the specific detection and quantification of comammox Nitrospira in the environment frontiers in Microbiology 8: 1508.
Ho, A, Angel R., Veraart, AJ, Daebeler A., Jia, Z, Kim, SY, Kerckhof, F-M, Boon, N, Bodelier, PLE (2016) Biotic Interactions in Microbial Communities as Modulators of Biogeochemical Processes: Methanotrophy as a Model System frontiers in Microbiology 7: 1285.
Daebeler A., Bodelier, PLE, Hefting, MM, Laanbroek, HJ (2015) Ammonia-limited conditions cause of Thaumarchaeal dominance in volcanic grassland soil FEMS Microbiology Ecology 91: fiv014.
Daebeler A., Bodelier, PLE, Yan, Z, Hefting, MM, Jia, Z, Laanbroek, HJ (2014) Interactions between Thaumarchaea, Nitrospira and methanotrophs modulate autotrophic nitrification in volcanic grassland soil The ISME Journal 8: 2397–241.
Daebeler A., Gansen, M, Frenzel, P (2013) Methyl Fluoride Affects Methanogenesis Rather than Community Composition of Methanogenic Archaea in a Rice Field Soil Plos One 8: e53656.
Daebeler A., Abell, GCJ, Bodelier, PLE, Bodrossy, L, Frampton, DMF, Hefting, MM, Laanbroek, HJ (2012) Archaeal dominated ammonia-oxidizing communities in Icelandic grassland soils are moderately affected by long-term N fertilization and geothermal heating frontiers in Microbiology 3: 352.


Biology Centre CAS
Branišovská 1160/31
370 05 České Budějovice
Data box: r84nds8


+420 387 775 111 (switchboard)
+420 387 775 051 (secretariat)
+420 778 468 552 (for media)

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