Biblio

Macek, M., K. Šimek, J. Pernthaler, V. Vyhnalek, and R. Psenner. 1996. Growth rates of dominant planktonic ciliates in two freshwater bodies of different trophic degree. Journal of Plankton Research 18: 463-481.

Vyhnalek, V., and K. Šimek. 1990. Growth of bacteria on organic matter produced by algae in continuous cultures. Archiv für Hydrobiologie Beihefte Ergebnisse der Limnologie 34: 37-42.

Pitsch, G., L. Adamec, S. Dirren, F. Nitsche, K. Šimek, D. Sirova, and T. Posch. 2017. The Green Tetrahymena utriculariae n. sp. (Ciliophora, Oligohymenophorea) with Its Endosymbiotic Algae (Micractinium sp.), Living in Traps of a Carnivorous Aquatic Plant. Journal of Eukaryotic Microbiology 64: 322-335.

2016. The Green Tetrahymena utriculariae n. sp. (Ciliophora, Oligohymenophorea) with Its Endosymbiotic Algae (Micractinium sp.), Living in Traps of a Carnivorous Aquatic Plant. Journal of Eukaryotic Microbiology , doi:10.1111/jeu.12369

Šimek, K., M. G. Weinbauer, K. Hornak, J. Jezbera, J. Nedoma, and J. R. Dolan. 2007. Grazer and virus-induced mortality of bacterioplankton accelerates development of Flectobacillus populations in a freshwater community. Environmental Microbiology 9: 789-800.

Zeng, Y., V. Kasalicky, K. Šimek, and M. Koblizek. 2012. Genome Sequences of Two Freshwater Betaproteobacterial Isolates, Limnohabitans Species Strains Rim28 and Rim47, Indicate Their Capabilities as Both Photoautotrophs and Ammonia Oxidizers. Journal of Bacteriology 194: 6302-6303.

Juergens, K., and K. Šimek. 2000. Functional response and particle size selection of Halteria cf. grandinella, a common freshwater oligotrichous ciliate. Aquatic Microbial Ecology 22: 57-68.

Jezbera, J., K. Hornak, and K. Šimek. 2005. Food selection by bacterivorous protists: insight from the analysis of the food vacuole content by means of Fluorescence In Situ Hybridization. FEMS Microbiology Ecology 52: 351-363.

Šimek, K., and D. Sirova. 2019. Fluorescently labeled bacteria used as a tracer can reveal novel pathways of organic carbon flow in aquatic ecosystems. Journal of Visualized Experiments 151: e59903.

Šimek, K., J. Nedoma, P. Znachor, V. Kasalicky, J. Jezbera, K. Hornak, and J. Seda. 2014. A finely tuned symphony of factors modulates the microbial food web of a freshwater reservoir in spring. Limnology and Oceanography 59: 1477–1492.

Nedoma, J., J. - C. Garcia, M. Comerma, K. Šimek, and J. Armengol. 2006. Extracellular phosphatases in a Mediterranean reservoir: seasonal, spatial and kinetic heterogeneity. Freshwater Biology 51: 1264-1276.

Strojsova, A., J. Vrba, J. Nedoma, and K. Šimek. 2005. Extracellular phosphatase activity of freshwater phytoplankton exposed to different in situ phosphorus concentrations. Marine and Freshwater Research 56: 417–424.

Vrba, J., J. Kofronova-Bobkova, J. Pernthaler, K. Šimek, M. Macek, and R. Psenner. 1997. Extracellular, low-affinity beta-N-acetylglucosaminidases linked to the dynamics of diatoms and crustaceans in freshwater systems of different trophic degree. Internationale Revue Der Gesamten Hydrobiologie 82: 277–286.

Vrba, J., K. Šimek, J. Pernthaler, and R. Psenner. 1996. Evaluation of extracellular, high-affinity beta-N-acetylglucosaminidase measurements from freshwater lakes: An enzyme assay to estimate protistan grazing on bacteria and picocyanobacteria. Microbial Ecology 32: 81–99.

Šimek, K., J. Vrba, and P. Lavrentyev. 1994. Estimates of protozoan bacterivory: From microscopy to ectoenzyme assay?. Marine Microbial Food Webs 8: 71–85.

Chrzanowski, T. H., K. Šimek, R. H. Sada, and S. Williams. 1993. Estimates of bacterial growth rate constants from thymidine incorporation and variable conversion factors. Microbial Ecology 25: 121-130.

Hornak, K., J. Jezbera, J. Nedoma, J. M. Gasol, and K. Šimek. 2006. Effects of resource availability and bacterivory on leucine incorporation in different groups of freshwater bacterioplankton, assessed using microautoradiography. Aquatic Microbial Ecology 45: 277-289.

Hornak, K., M. Masin, J. Jezbera, Y. Bettarel, J. Nedoma, T. Sime-Ngando, and K. Šimek. 2005. Effects of decreased resource availability, protozoan grazing and viral impact on a structure of bacterioplankton assemblage in a canyon-shaped reservoir. FEMS Microbiology Ecology 52: 315-327.

Hornak, K., J. Jezbera, and K. Šimek. 2008. Effects of a Microcystis aeruginosa bloom and bacterivory on bacterial abundance and activity in a eutrophic reservoir. Aquatic Microbial Ecology 52: 107-117.

Šimek, K., M. Comerma, J. C. García, R. Marcé, J. Nedoma, and J. Armengol. 2011. The effect of river water circulation on the distribution and functioning of reservoir microbial communities as determined by a relative distance approach. Ecosystems 14: 1–14.

Hejzlar, J., P. Dolejs, J. Komarkova, J. Seda, K. Šimek, and V. Vyhnalek. 1998. Effect of biomanipulation on the structuring of the planktonic food web and water treatability by coagulation. Water Science and Technology 37: 105-112.

Šimek, K., G. Pitsch, M. M. Salcher, D. Sirova, T. Shabarova, L. Adamec, and T. Posch. 2017. Ecological Traits of the Algae-Bearing Tetrahymena utriculariae (Ciliophora) from Traps of the Aquatic Carnivorous Plant Utricularia reflexa. Journal of Eukaryotic Microbiology 64: 336-348.

Šimek, K., K. Juergens, J. Nedoma, M. Comerma, and J. Armengol. 2000. Ecological role and bacterial grazing of Halteria spp.: small freshwater oligotrichs as dominant pelagic ciliate bacterivores. Aquatic Microbial Ecology 22: 43-56.

Kasalicky, V., J. Jezbera, K. Šimek, and M. W. Hahn. 2013. The diversity of the Limnohabitans genus, an important group of freshwater bacterioplankton, by characterization of 35 isolated strains. PLoS ONE 8: e58209.

Shabarova, T., V. Kasalicky, K. Šimek, J. Nedoma, P. Znachor, T. Posch, J. Pernthaler, and M. M. Salcher. 2017. Distribution and ecological preferences of the freshwater lineage LimA (genus Limnohabitans) revealed by a new double hybridization approach. Environmental Microbiology 19: 1296–1309.