Publikace
| Celkem nalezeno: 141 záznamů |
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Kavagutti V.,
Bulzu P.,
Chiriac M.,
Salcher M.,
Mukherjee I.,
Shabarova T.,
Grujčić V.,
Mehrshad M.,
Kasalický V., Andrei A.S.,
Jezberová J.,
Seďa J.,
Rychtecký P.,
Znachor P.,
Šimek K.,
Ghai R. (2023) High‑resolution metagenomic reconstruction of the freshwater spring bloom. Microbiome
11: 15.
DOI: 10.1186/s40168-022-01451-4 |
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Šimek K.,
Mukherjee I.,
Szöke-Nagy T.,
Haber M.,
Salcher M.,
Ghai R. (2023) Cryptic and ubiquitous aplastidic cryptophytes are key freshwater flagellated bacterivores. ISME Journal
17: 84–94.
DOI: 10.1038/s41396-022-01326-4 |
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Prokopchuk G., Korytář T., Juricová V., Horák A., Majstorović J.,
Šimek K., Lukeš J. (2022) Trophic flexibility of marine diplonemids - switching from osmotrophy to bacterivory The ISME Journal
16: 1409–1419.
DOI: 10.1038/s41396-022-01192-0 Dokumenty ke stažení: Prokopchuk_2022_ISMEJ (pdf) |
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Šimek K.,
Mukherjee I.,
Nedoma J.,
Pires de Paula C.,
Jezberová J.,
Sirová D.,
Vrba J. (2022) CARD-FISH and prey tracer techniques reveal the role of overlooked flagellate groups as major bacterivores in freshwater hypertrophic shallow lakes. Environmental Microbiology
24: 4256–4273.
DOI: 10.1111/1462-2920.15846 |
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Piwosz K.,
Mukherjee I.,
Salcher M., Grujčić V.,
Šimek K. (2021) CARD-FISH in the sequencing era: Opening a new universe of protistan ecology. Frontiers in Microbiology
12: 640066.
DOI: 10.3389/fmicb.2021.640066 |
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Ságová-Marečková M., Boenigk J., Bouchez A., Cermakova K., Chonova T., Cordier T., Eisendle U., Elersek T., Fazi S., Fleituch T., Frühe L., Gajdosova M., Graupner N., Haegerbaeumer A., Kelly A.-M., Kopecký J., Nõges P., Orlic S., Panksep K., Pawlowski J., Petrusek A., Piggot J.J., Rusch J.C., Salis R., Schenk J.,
Šimek K., Stovicek A., Strand D.A., Vasquez M.I., Vralstad T., Zlatkovic S., Zupancic M., Stoeck T. (2021) Expanding ecological assessment by integrating microorganisms into routine freshwater biomonitoring. Water Research
191: 116767.
DOI: doi.org/10.1016/j.watres.2020.116767 |
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Shabarova T.,
Salcher M.,
Porcal P.,
Znachor P.,
Nedoma J., Grossart H.,
Seďa J.,
Hejzlar J.,
Šimek K. (2021) Recovery of freshwater microbial communities after extreme rain events is mediated by cyclic succession. Nature Microbiology
6: 479–488.
DOI: 10.1038/s41564-020-00852-1 |
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Mukherjee I.,
Salcher M., Andrei A., Kavagutti V.,
Shabarova T., Grujčić V.,
Haber M.,
Layoun P., Hodoki Y., Nakano S.,
Šimek K.,
Ghai R. (2020) A freshwater radiation of diplonemids Environmental Microbiology
22: 4658–4668.
DOI: doi.org/10.1101/2020.05.14.095992 |
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Piwosz K.,
Shabarova T., Pernthaler J., Posch T.,
Šimek K.,
Porcal P.,
Salcher 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: e00052-20.
DOI: 10.1128/mSphere.00052-20 |
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Šimek K.,
Grujčić V.,
Mukherjee I.,
Kasalický V.,
Nedoma J., Posch T.,
Mehrshad M.,
Salcher M. (2020) Cascading effects in freshwater microbial food webs by predatory Cercozoa, Katablepharidacea and ciliates feeding on aplastidic bacterivorous cryptophytes FEMS Microbiology Ecology
96: fiaa121.
DOI: doi.org/10.1093/femsec/fiaa121 |
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Bednařík A., Blaser M.,
Matoušů A.,
Tušer M., Chaudhary P.P. ,
Šimek K., Rulík M. (2019) Sediment methane dynamics along the Elbe River Limnologica
79: 125716.
DOI: 10.1016/j.limno.2019.125716 |
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Gabaldon Tebar C., Devetter M.,
Hejzlar J.,
Šimek K.,
Znachor P.,
Nedoma J.,
Seďa J. (2019) Seasonal strengths of the abiotic and biotic drivers of a zooplankton community Freshwater Biology
64: 1326–1341.
DOI: 10.1111/fwb.13308 |
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Matoušů A., Rulík M.,
Tušer M., Bednařík A.,
Šimek K., Bussmann I. (2019) Methane dynamics in a large river: a case study of the Elbe River Aquatic Sciences
81: UNSP 12.
DOI: 10.1007/s00027-018-0609-9 |
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Šimek K.,
Grujčić V.,
Nedoma J.,
Jezberová J., Šorf M.,
Matoušů A., Pechar L., Posch T., Bruni E.P.,
Vrba J. (2019) Microbial food webs in hypertrophic fishponds: Omnivorous ciliate taxa are major protistan bacterivores Limnology and Oceanography
64: 2295–2309.
DOI: 10.1002/lno.11260 |
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Šimek K.,
Sirová D. (2019) Fluorescently Labeled Bacteria as a Tracer to Reveal Novel Pathways of Organic Carbon Flow in Aquatic Ecosystems Jove - Journal of Visualized Experiments
151: e59903.
DOI: 10.3791/59903 |
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Weinbauer M., Suominen S.,
Jezbera J., Kerros M.E., Marro S., Dolan J.,
Šimek K. (2019) Shifts in cell size and community composition of bacterioplankton due to grazing by heterotrophic flagellates: evidence from a marine system Aquatic Microbial Ecology
83: 295–308.
DOI: 10.3354/ame01919 |
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Grujčić V., Nuy J. K.,
Salcher M.,
Shabarova T.,
Kasalický V., Boenigk J., Jensen M. ,
Šimek K. (2018) Cryptophyta as major bacterivores in freshwater summer plankton ISME Journal
12: 1668-1681.
DOI: 10.1038/s41396-018-0057-5 |
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Kasalický V., Zeng Y. H. , Piwosz K.,
Šimek K., Kratochvilová H., Koblížek M. (2018) Aerobic Anoxygenic Photosynthesis Is Commonly Present within the Genus Limnohabitans Applied and Environmental Microbiology
84: e02116-17.
DOI: 10.1128/AEM.02116-17 |
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Mehrshad M., Salcher M.M., Okazaki Y., Nakano S.,
Šimek K., Andrei A.,
Ghai R. (2018) Hidden in plain sight—highly abundant and diverse planktonic freshwater Chloroflexi Microbiome
6: 176.
DOI: 10.1186/s40168-018-0563-8 |
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Piwosz K.,
Shabarova T., Tomasch J.,
Šimek K., Kopejtka K., Kahl S., Pieper D.H. , Koblížek M. (2018) Determining lineage-specific bacterial growth curves with a novel approach based on amplicon reads normalization using internal standard (ARNIS) ISME Journal
12: 2640-2654.
DOI: 10.1038/s41396-018-0213-y |
