Biblio | Department of Ecosystem Biology

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Straskrabova, V., J. Komarkova, M. Macek, J. Seda, K. Šimek, J. Vrba, and V. Vyhnalek. 1993. Microbial algal crustacean interactions in a reservoir under different fishstock. Archiv für Hydrobiologie Beihefte Ergebnisse der Limnologie 40: 209–221.

Matoušů, A., R. Osudar, K. Šimek, and I. Bussmann. 2017. Methane distribution and methane oxidation in the water column of the Elbe estuary, Germany. Aquatic Sciences 79: 443-458.

Groben, R., M. W. Hahn, K. Hornak, J. Mergeay, K. Šimek, and J. Vrba. 2007. Meeting report: ALTER-net workshop about the "application of molecular techniques to study biodiversity, structure and function of planktonic communities in lakes’’ at Blanes, Spain, February 15-16, 2007. Protist 158: 417-421.

Straskrabova, V., and K. Šimek. 1988. Measurement of biomass and activity in relation to structure and function of microbial communities in plankton. Archiv für Hydrobiologie Beihefte Ergebnisse der Limnologie 31: 55-60.

Šimek, K., K. Hornak, J. Jezbera, J. Nedoma, J. Vrba, V. Straskrabova, M. Macek, J. R. Dolan, and M. W. Hahn. 2006. Maximum growth rates and possible life strategies of different bacterioplankton groups in relation to phosphorus availability in a freshwater reservoir. Environmental Microbiology 8: 1613–1624.

Vrba, J., J. Nedoma, L. Kohout, J. Kopacek, L. Nedbalova, P. Rackova, and K. Šimek. 2003. Massive occurrence of heterotrophic filaments in acidified lakes: seasonal dynamics and composition. FEMS Microbiology Ecology 46: 281–294.

2016. Marine bacterial community structure resilience to changes in protist predation under phytoplankton bloom conditions. ISME Journal 10: 568-581.

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Straskrabova, V., K. Šimek, and J. Vrba. 2005. Long-term development of reservoir ecosystems - changes in pelagic food webs and their microbial component. Limnetica 24: 9 - 20.

Straskrabova, V., Z. Brandl, J. Hrbacek, J. Komarkova, J. Seda, M. Straskraba, and K. Šimek. 1998. Long-term changes of bacteria, phytoplankton and zooplankton: Temporal coherence between deep stratified reservoirs. International Review of Hydrobiology 83: 21–30.

Jezbera, J., J. Nedoma, and K. Šimek. 2003. Longitudinal changes in protistan bacterivory and bacterial production in two canyon-shaped reservoirs of different trophic status. Hydrobiologia 504: 115-130.

Hejzlar, J., J. Kopacek, J. Vrba, H. Cizkova, J. Komarkova, and K. Šimek. 1998. Limnological study of Plešné Lake in 1994-1995. Silva Gabreta 2: 155-174.

Hejzlar, J., J. Kopacek, J. Vrba, H. Cizkova, J. Komarkova, and K. Šimek. 1996. Limnological study of Plesne Lake in 1994-1995. Silva Gabreta 2: 155 - 174.

Vrba, J., J. Kopacek, V. Straskrabova, J. Hejzlar, and K. Šimek. 1996. Limnological research of acidified lakes in Czech part of the Sumava Mountains: trophic status and dominance of microbial food webs. Silva Gabreta 1: 151 - 164.

Kasalicky, V., J. Jezbera, K. Šimek, and M. W. Hahn. 2010. Limnohabitans planktonicus sp. nov., and Limnohabitans parvus sp. nov., two novel planktonic Betaproteobacteria isolated from a freshwater reservoir. International Journal of Systematic and Evolutionary Microbiology 60: 2710 - 2714.

Jezberova, J., J. Jezbera, P. Znachor, J. Nedoma, V. Kasalicky, and K. Šimek. 2017. Limnohabitans genus harbor generalist and opportunist genotype groups: evidence from spatiotemporal succession in a canyon-shaped reservoir. Appl. Environ. Microbiol. 83: e01530-17.

Hahn, M. W., V. Kasalicky, J. Jezbera, U. Brandt, J. Jezberova, and K. Šimek. 2010. Limnohabitans curvus gen. nov., sp. nov., a planktonic bacterium isolated from a freshwater lake. International Journal of Systematic and Evolutionary Microbiology 60: 1358-1365.

Hahn, M. W., V. Kasalicky, J. Jezbera, U. Brandt, and K. Šimek. 2010. Limnohabitans australis sp. nov., isolated from a freshwater. J. Syst. Evol. Microbiol 60: 2946 - 2950.

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Salcher, M. M., and K. Šimek. 2016. Isolation and cultivation of planktonic freshwater microbes is essential for a comprehensive understanding of their ecology. Aquatic Microbial Ecology 77: 183-196.

Straskrabova, V., C. Callieri, P. Carrillo, L. Cruz-Pizarro, J. Fott, P. Hartman, M. Macek, J. M. Medina-Sanchez, J. Nedoma, and K. Šimek. 1999. Investigations on pelagic food webs in mountain lake - aims and methods. Journal of Limnology 58: 77-87.

Salcher, M. M., C. Ewert, K. Šimek, V. Kasalicky, and T. Posch. 2016. Interspecific competition and protistan grazing affect the coexistence of freshwater betaproteobacterial strains. FEMS Microbiology Ecology 92, doi:10.1093/femsec/fiv156

Matena, J., K. Šimek, and C. H. Fernando. 1995. Ingestion of suspended bacteria by fish: a modified approach. Journal of Fish Biology 47: 334-336.

Dolan, J. R., and K. Šimek. 1998. Ingestion and digestion of an autotrophic picoplankter, Synechococcus, by a heterotrophic nanoflagellate, Bodo saltans. Limnology and Oceanography 43: 1740-1746.

Šimek, K., K. Hornak, J. Jezbera, M. Masin, J. Nedoma, J. M. Gasol, and M. Schauer. 2005. Influence of top-down and bottom-up manipulations on the R-BT065 subcluster of beta-proteobacteria, an abundant group in bacterioplankton of a freshwater reservoir. Applied And Environmental Microbiology 71: 2381-2390.

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Sirova, D., J. Bárta, K. Šimek, T. Posch, J. Pech, J. Stone, J. Borovec, L. Adamec, and J. Vrba. 2018. Hunters or farmers? Microbiome characteristics help elucidate the diet composition in an aquatic carnivorous plant. Microbiome 225, doi:10.1186/s40168-018-0600-7

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Mehrshad, M., M. M. Salcher, Y. Okazaki, S. Nakano, K. Šimek, S. A. Andrei, and R. Ghai. 2018. Hidden in plain sight - highly abundant and diverse planktonic freshwater Chloroflexi. Microbiome 176.