Publications

ZORA Publication List

Publications

• 2025

  • Andrei, A.-S., Grossart, H.-P., & Pernthaler, J. (2025). Europe’s water law needs genomic resolution Nature Water, 3(9), 963–964. https://doi.org/10.1038/s44221-025-00488-7
  • Schalch-Schuler, Martina Christine . Lake Warming and Microbial Food Web Dynamics in Spring: A Focus on Ciliates 2025, University of Zurich, Mathematisch-naturwissenschaftliche Fakultät.
  • Paszti, Sarah . Identification of Colonization Factors in $\textit{Burkholderia}$ by Applying Genome-Wide Mutant Profiling 2025, University of Zurich, Mathematisch-naturwissenschaftliche Fakultät.

• 2024

  • Malfertheiner, Lukas . Unraveling Aspects of Community Structure in Microbiomes – From Small Ribozymes to Global Ecological Trends 2024, University of Zurich, Mathematisch-naturwissenschaftliche Fakultät.
  • Schalch-Schuler, M., Bassin, B., Dirren, G., Waller, K., Hofer, C., Pernthaler, J., Andrei, A.-S., & Posch, T. (2024). The planktonic freshwater ciliate Balanion planctonicum (Ciliophora, Prostomatea): A cryptic species complex or a “complex species”? Journal of Eukaryotic Microbiology, 72(1), e13084. https://doi.org/10.1111/jeu.13084
  • Serra Moncadas, Lucas; Hofer, Cyrill; Bulzu, Paul-Adrian; Pernthaler, Jakob; Andrei, Adrian-Stefan (2024). Freshwater genome-reduced bacteria exhibit pervasive episodes of adaptive stasis Nature Communications, 15(1):3421.
  • Rain-Franco, Angel; Le Moigne, Alizée; Serra Moncadas, Lucas; Silva, Marisa O D; Andrei, Adrian-Stefan; Pernthaler, Jakob (2024). Dispersal shapes compositional and functional diversity in aquatic microbial communities mSystems, 9(12):e0140324.

• 2023

  • Pernthaler, Jakob; Krempaska, Natalia; Le Moigne, Alizée (2023). Small-scale spatial beta diversity of bacteria in the mixed upper layer of a lake Environmental Microbiology, 25(10):1847-1859.
  • Le Moigne, Alizée; Randegger, Florian; Gupta, Anubhav; Petchey, Owen L; Pernthaler, Jakob (2023). Stochasticity causes high β-diversity and functional divergence of bacterial assemblages in closed systems Ecology, 104(4):e4005.
  • Straub, Hervé Jean . Should I stay or should I flow: Pseudomonas aeruginosa biofilm formation under flow in a microfluidic platform 2023, University of Zurich, Mathematisch-naturwissenschaftliche Fakultät.
  • Shilling, Rebecca Elizabeth . Inhibition of BerB within B. cenocepacia H111 single cells and its consequences on the macrolony 2023, University of Zurich, Mathematisch-naturwissenschaftliche Fakultät.

• 2022

  • Dirren-Pitsch, Gianna; Bühler, Dominique; Salcher, Michaela M; Bassin, Barbara; Le Moigne, Alizée; Schuler, Martina; Pernthaler, Jakob; Posch, Thomas (2022). FISHing for ciliates: Catalyzed reporter deposition fluorescence in situ hybridization for the detection of planktonic freshwater ciliates Frontiers in Microbiology, 13:1070232.
  • Zhu, Baoli; Karwautz, Clemens; Andrei, Adrian-Stefan; Klingl, Andreas; Pernthaler, Jakob; Lueders, Tillmann (2022). A novel Methylomirabilota methanotroph potentially couples methane oxidation to iodate reduction mLife, 1(3):323-328.
  • Le Moigne, Alizée . Emergent complexity in microbial community assembly: insights from taxonomic and functional properties 2022, University of Zurich, Faculty of Science.
  • Gschwend, Florian . Next-generation soil quality monitoring : metabarcoding of soil bacterial and fungal communities for long-term soil quality monitoring 2022, University of Zurich, Faculty of Science.
  • Purtschert-Montenegro, Gabriela . Identification of a novel bacterial killing nanomachine in Pseudomonas putida IsoF 2022, University of Zurich, Mathematisch-naturwissenschaftliche Fakultät.
  • Kalawong, Ratchara . Influence of putisolvin on membrane vesicle and nanotube formation in Pseudomonas putida IsoF 2022, University of Zurich, Mathematisch-naturwissenschaftliche Fakultät.

• 2021

  • Krempaska, Natalia; Horňák, Karel; Silva, Marisa O D; Pernthaler, Jakob (2021). Spatial microheterogeneity and selective microbial consumption of dissolved free amino acids in an oligomesotrophic lake Limnology and Oceanography, 66(10):3728-3739.
  • Gualdi, Stefano . Identification of fitness determinants in Burkholderia cenocepacia H111 by transposon sequencing 2021, University of Zurich, Mathematisch-naturwissenschaftliche Fakultät.

• 2020

  • Silva, Marisa O D; Pernthaler, Jakob (2020). Biomass addition alters community assembly in ultrafiltration membrane biofilms Scientific Reports, 10:11552.
  • Le Moigne, Alizée; Bartosiewicz, Maciej; Schaepman‐Strub, Gabriela; Abiven, Samuel; Pernthaler, Jakob (2020). The biogeochemical variability of Arctic thermokarst ponds is reflected by stochastic and niche‐driven microbial community assembly processes Environmental Microbiology, 22(11):4847-4862.
  • Piwosz, Kasia; Shabarova, Tanja; Pernthaler, Jakob; Posch, Thomas; Šimek, Karel; Porcal, Petr; Salcher, Michaela M (2020). Bacterial and eukaryotic small-subunit amplicon data do not provide a quantitative picture of microbial communities, but they are reliable in the context of ecological interpretations mSphere, 5(2):00052-20.

• 2019

  • Silva, Marisa O D; Pernthaler, Jakob (2019). Priming of microcystin degradation in carbon-amended membrane biofilm communities is promoted by oxygen-limited conditions FEMS Microbiology Ecology, 95(11):157.

• 2015

  • Cárcamo Oyarce, Gerardo . Social behaviors of Pseudomonas putida IsoF 2015, University of Zurich, Faculty of Science.

• 2012

  • Dieckmann, Sarah Maria . Analysis of novel haemotrophic mycoplasma isolates with main focus on significance of haemotrophic mycoplasma infections in horses 2012, University of Zurich, Faculty of Science.

• 2011

  • Stark, Manuel . MLTreeMap - maximum likelihood placement of environmental DNA sequence reads into curated reference phylogenies 2011, University of Zurich, Faculty of Science.