Dr. Denny Popp

Dr. Denny Popp

Denny Popp


Department Umweltmikrobiologie
Arbeitsgruppe Systembiologie mikrobieller Gemeinschaften
Helmholtz-Zentrum für Umweltforschung - UFZ
Permoserstr. 15, 04318 Leipzig

Tel.: +49 341 235 482247



seit 2016

Helmholtz-Zentrum für Umweltforschung – UFZ, Department Umweltmikrobiologie, Arbeitsgruppe Systembiologie mikrobieller Gemeinschaften


Wageningen University (Niederlande), Laboratory of Microbiology, Arbeitsgruppe Microbial Physiology (DAAD-Stipendium)

2012 - 2016

Helmholtz-Zentrum für Umweltforschung – UFZ, Department Umweltmikrobiologie, Arbeitsgruppe Mikrobiologie Anaerober Systeme
Doktorarbeit: "Alternative substrates for biogas production: Impact of plant secondary metabolites on the anaerobic digestion process" (Universität Leipzig)

2010 - 2012

Angewandte Naturwissenschaft (M.Sc.)
TU Bergakademie Freiberg
Masterarbeit: “Elastic networks: Study of large-scale conformational motions of membrane proteins” am Fritz-Haber-Institut der Max-Planck-Gesellschaft in Berlin

2007 - 2010

Angewandte Naturwissenschaft (B.Sc.)
TU Bergakademie Freiberg

Praktika, Projekt- und Abschlussarbeiten

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Beteiligung an folgenden Lehrveranstaltungen:

HIGRADE-Kurs: Introduction to Systems Biology: From OMICS data analysis to metabolic network modeling (jährlich im Herbst)

Develop-Kurs: Introduction to Amplicon and Metagenome Analyses (jährlich im Sommer)

Develop-Kurs: Introduction to long read sequencing for (meta)genomics (jährlich im Winter)

Universität Leipzig - Quantitative Biologie für eine nachhaltige Umwelt- und industrielle Biotechnologie - Vorlesung und Übung (SS 2018-2020)

TU Dresden - Continuous Bioprocesses: Anaerobic Digestion - Vorlesung und Übung (WS 2017/18 - WS 2020/21)

Soziale Netzwerke


Peer-reviewed Publikationen


Laura Rago, Denny Popp, John T. Heiker, Falk Harnisch. Electroactive microorganisms in mouse feces. Electrochimica Acta 2021 365:137326 doi:10.1016/j.electacta.2020.137326 


Bin Liu, Denny Popp, Heike Sträuber, Hauke Harms, Sabine Kleinsteuber. Draft Genome Sequences of Three Clostridia Isolates Involved in Lactate-based Chain Elongation. Microbial Resource Announcements 2020 9:e00679-20 doi:10.1128/MRA.00679-20

Denny Popp & Florian Centler. µbialSim: constraint-based dynamic simulation of complex microbiomes. Frontiers in Bioengineering and Biotechnology 2020 8:574 doi:10.3389/fbioe.2020.00574    

Daniela Becker, Denny Popp, Hauke Harms, Florian Centler. A Modular Metagenomics Pipeline Allowing for the Inclusion of Prior Knowledge Using the Example of Anaerobic Digestion. microorganisms 2020 8(5):669 doi:10.3390/microorganisms8050669          

Song-Can Chen, Guo-Xin Sun, Yu Yan, Konstantinos T. Konstantinidis, Si-Yu Zhang, Ye Deng, Xiao-Min Li, Hui-Ling Cui, Florin Musat, Denny Popp, Barry P. Rosen,  Yong-Guan Zhu. The Great Oxidation Event expanded the genetic repertoire of arsenic metabolism and cycling. PNAS 2020 doi:10.1073/pnas.2001063117

Washington Logroño, Denny Popp, Sabine Kleinsteuber, Heike Sträuber, Hauke Harms, Marcell Nikolausz. Microbial Resource Management for Ex Situ Biomethanation of Hydrogen at Alkaline pH. microorganisms 2020 8:614 doi:10.3390/microorganisms8040614    


Sören Weinrich, Sabine Koch, Fabian Bonk, Denny Popp, Dirk Benndorf, Steffen Klamt, Florian Centler. Augmenting biogas process modeling by resolving intracellular metabolic activity. Frontiers in Microbiology 2019 10:1095 doi: 10.3389/fmicb.2019.01095

Song-Can Chen, Niculina Musat, Oliver J. Lechtenfeld, Heidrun Paschke, Matthias Schmidt, Nedal Said, Denny Popp, Federica Calabrese, Hryhoriy Stryhanyuk, Ulrike Jaekel, Yong-Guan Zhu, Samantha B. Joye, Hans-Hermann Richnow, Friedrich Widdel, Florin Musat. Anaerobic oxidation of ethane by archaea from a marine hydrocarbon seep. Nature 2019 568:108-111 doi: 10.1038/s41586-019-1063-0

Fabian Bonk, Denny Popp, Sören Weinrich, Heike Sträuber, Daniela Becker, Sabine Kleinsteuber, Hauke Harms, Florian Centler. Determination of Microbial Maintenance in Acetogenesis and Methanogenesis by Experimental and Modeling Techniques. Frontiers in Microbiology 2019 10:166 doi: 10.3389/fmicb.2019.00166


Fabian Bonk, Denny Popp, Sören Weinrich, Heike Sträuber, Sabine Kleinsteuber, Hauke Harms, Florian Centler. Ammonia inhibition of anaerobic volatile fatty acid degrading microbial communities. Frontiers in Microbiology 2018 9:2921 doi: 10.3389/fmicb.2018.02921

Fabian Bonk, Denny Popp, Sören Weinrich, Heike Sträuber, Sabine Kleinsteuber, Hauke Harms, Florian Centler. Intermittent fasting for microbes: how discontinuous feeding increases functional stability in anaerobic digestion. Biotechnology for Biofuels 2018 11:274 doi: 10.1186/s13068-018-1279-5

Fabian Bonk*, Denny Popp*, Hauke Harms, Florian Centler. PCR-based quantification of taxa-specific abundances in microbial communities: Quantifying and avoiding common pitfalls. Journal of Microbiological Methods 2018 153:139-147 doi: 10.1016/j.mimet.2018.09.015 (*geteilte Erstautorenschaft)

Babett Wintsche, Nico Jehmlich, Denny Popp, Hauke Harms, Sabine Kleinsteuber. Metabolic Adaptation of Methanogens in Anaerobic Digesters Upon Trace Element Limitation. Frontiers in Microbiology 2018 9:405
doi: 10.3389/fmicb.2018.00405


Denny Popp, Caroline M. Plugge, Sabine Kleinsteuber, Hauke Harms, Heike Sträuber. Inhibitory effect of coumarin on syntrophic fatty acid oxidizing and methanogenic cultures and biogas reactor microbiomes. Applied and Environmental Microbiology 2017;83(13):e00438-17
doi: 10.1128/AEM.00438-17

Denny Popp, Philipp von Gillhaussen, Emanuela W.A. Weilich, Heike Sträuber, Hauke Harms, Vicky M. Temperton. Methane yield of biomass from extensive grassland is affected by compositional changes induced by order of arrival. GCB Bioenergy 2017; 
doi: 10.1111/gcbb.12441


Denny Popp, Hauke Harms, Heike Sträuber. The alkaloid gramine in the anaerobic digestion process—inhibition and adaptation of the methanogenic community. Applied Microbiology and Biotechnology 2016;100(16):7311-7322.
doi: 10.1007/s00253-016-7571-z


Denny Popp, Steffi Schrader, Sabine Kleinsteuber, Hauke Harms, Heike Sträuber. Biogas production from coumarin-rich plants—inhibition by coumarin and recovery by adaptation of the bacterial community. FEMS Microbiology Ecology 2015;91(9).
doi: 10.1093/femsec/fiv103


Holger Flechsig, Denny Popp, Alexander S. Mikhailov. In Silico Investigation of Conformational Motions in Superfamily 2 Helicase Proteins. PLoS ONE 2011:6(7): e21809 doi: 10.1371/journal.pone.0021809

(Mein publons-Profil)


Denny Popp, Fabian Bonk, Daniela Becker, Sabine Kleinsteuber. Nucleic acid based molecular biology tests. In: Collection of Methods for Biogas. Jan Liebetrau, Diana Pfeiffer (Eds.) 2020 PDF

P. Walter Stinner, Arno Deuker, Tina Schmalfuß, Christopher Brock, Nadja Rensberg, Velina Denysenko, Paul Trainer, Kurt Möller, Joachim Zang, Leandro Janke, Wilson Mozena Leandro, Katja Oehmichen, Denny Popp, Jaqueline Daniel-Gromke. Perennial and Intercrop Legumes as Energy Crops for Biogas Production. In: Legumes for Soil Health and Sustainable Management. Ram Swaroop Meena, Anup Das, Gulab Singh Yadav, Rattan Lal (Eds.) 2018, Springer Singapore
doi: 10.1007/978-981-13-0253-4


  • Young Investigator Group Award - e:Bio Status Seminar 2017 BMBF, September 2017, Dresden, Germany
  • Best Poster Prize - 3rd International Conference on Biogas Microbiology (ICBM3), Mai 2017, Wageningen, Niederland
  • Best Poster Slam - 3rd International Conference on Monitoring and Process Control of Anaerobic Digestion Plants, März 2017, Leipzig