PUBLICATIONS

Bourland, W., Pomahač, O., Méndez-Sánchez, D., Beinart, R.A., Bernhard, J.M., Čepička, I. and Rotterová, J., 2025.

The end of a winding path: The anaerobic ciliate Spirorhynchus is a member of the class Muranotrichea. Protist, p.126129.

https://doi.org/10.1016/j.protis.2025.126129

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Rotterová, J., Breusing, C., Čepička, I. and Beinart, R.A., 2025. Population genomic insights into syntrophic symbioses between marine anaerobic ciliates and intracellular methanogens. bioRxiv, pp.2025-07.  

https://doi.org/10.1101/2025.07.30.667679​

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Méndez-Sánchez, D., Schrecengost, A., Rotterová, J., Koštířová, K., Beinart, R.A. and Čepička, I., 2024. Methanogenic symbionts of anaerobic ciliates are host and habitat specific. The ISME Journal, 18, p.wrae164. 

https://doi.org/10.1093/ismejo/wrae164

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Schrecengost, A., Rotterová, J., Poláková, K., Čepička, I. and Beinart, R.A., 2024. Divergent marine anaerobic ciliates harbor closely related Methanocorpusculum endosymbionts. The ISME Journal, 18, p.wrae125. 

https://doi.org/10.1093/ismejo/wrae125

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Rotterová, J., Pánek, T., Salomaki, E.D., Kotyk, M., Táborský, P., Kolísko, M. and Čepička, I., 2024. Single cell transcriptomics reveals UAR codon reassignment in Palmarella salina (Metopida, Armophorea) and confirms Armophorida belongs to APM clade. Molecular Phylogenetics and Evolution, p.107991. https://doi.org/10.1016/j.ympev.2023.107991

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Feng, X., Méndez-Sánchez, D., Zhuang, W., Li, R., Pomahač, O., Čepička, I., Rotterová, J., Hu, X., 2024. Morphology, morphogenesis, and molecular characterization of Castula specialis sp. nov. (Ciliophora, Armophorea, Metopida). Journal of Eukaryotic Microbiology, 71, e13014. (IF 3.170) https://doi.org/10.1111/jeu.13014

 

Li, R., Zhuang, W., Feng, X., Al-Farraj, S. A., Schrecengost, A., Rotterová, J., Beinart, R. A., Hu, X, 2023. Molecular phylogeny and taxonomy of three anaerobic plagiopyleans (Alveolata, Ciliophora), retrieved from two geographically distant localities in Asia and North America. Zoological Journal of the Linnean Society 199: 493–510. (IF 3.286)

https://doi.org/10.1093/zoolinnean/zlad015

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Méndez‐Sánchez, D., Pomahač, O., Rotterová, J., Bourland, W.A. and Čepička, I., 2023. Morphology and phylogenetic position of three anaerobic ciliates from the classes Odontostomatea and Muranotrichea (Ciliophora). Journal of Eukaryotic Microbiology, p.e12965. (IF 3.170) https://doi.org/10.1111/jeu.12965

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Rotterová, J., Edgcomb, V.P., Čepička, I., Beinart, R., 2022. Anaerobic ciliates as a model group for studying symbioses in oxygen‐depleted environments. Journal of Eukaryotic Microbiology, p.e12912. (IF 3.170) Selected for cover 

https://doi.org/10.1111/jeu.12912

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Méndez-Sánchez, D., Pomahač, O., Rotterová, J., Bourland, W., Čepička, I., 2022. Diversity and phylogenetic position of  Bothrostoma Stokes, 1887 (Ciliophora: Metopida), a poorly studied ciliate genus, with description of four new species. Protist 173: p. 125887. (IF 2.700) https://doi.org/10.1016/j.protis.2022.125887

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Rotterová, J., Salomaki, E., Pánek, T., Bourland, W., Žihala, D., Táborský, P., Edgcomb, V. P., Beinart, R. A., Kolísko, M., Čepička, I., 2020. Genomics of new ciliate lineages provides insight into the evolution of obligate anaerobiosis. Current Biology 30: 1– 14. (IF 9.193) https://doi.org/10.1016/j.cub.2020.03.064

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Bourland, W., Rotterová, J., Čepička, I., 2020. Description of three new genera of Metopidae (Metopida, Ciliophora): Pileometopus gen. nov., Castula gen. nov., and Longitaenia gen. nov., with notes on the phylogeny and cryptic diversity of metopid ciliates. Protist 171: p.125740. (IF 3.000) https://doi.org/10.1016/j.protis.2020.125740

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Bourland, W., Rotterová, J., Čepička, I., 2018. Morphologic and molecular characterization of Brachonella pulchra (Kahl, 1927)  comb. nov. (Armophorea, Ciliophora) with comments on cyst structure and formation. International Journal of Systematic Evolutionary Microbiolology 68:3052–3065. (IF 2.166) https://doi.org/10.1099/ijsem.0.002888

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Rotterová, J., Bourland, W., Čepička, I., 2018. Tropidoatractidae fam. nov., a deep branching lineage of Metopida (Armophorea, Ciliophora) found in diverse habitats and possessing prokaryotic symbionts. Protist 169: 362–405. (IF 3.000) 

https://doi.org/10.1016/j.protis.2018.04.003 

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Beinart, R.A., Rotterová, J., Čepička, I., Gast, R.J., Edgcomb, V.P., 2018. The genome of an endosymbiotic methanogen is very similar to those of its free‐living relatives. Environmental Microbiology 20: 2538–2551. (IF 5.147) Selected for cover 

https://doi.org/10.1111/1462-2920.14279

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Bourland, W., Rotterová, J., Luo, X., Čepička, I., 2018. The little-known freshwater metopid ciliate, Idiometopus turbo (Dragesco and Dragesco-Kernéis, 1986) nov. gen., nov. comb., originally discovered in Africa, found on the Micronesian island of Guam. Protist 169: 494–506. (IF 3.000) https://doi.org/10.1016/j.protis.2018.05.004

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Warren, A., Patterson, D. J., Dunthorn, M., Clamp, Rotterová, J., et al., 2017. Beyond the “Code”: A guide to the description and documentation of biodiversity in ciliated protists (Alveolata, Ciliophora). Journal of Eukaryotic Microbiology 64: 539–554. (IF 3.170)** https://doi.org/10.1111/jeu.12391

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Bourland, W.A., Rotterová, J., Čepička, I., 2017. Redescription and molecular phylogeny of Metopus es Lauterborn, 1916 and Brachonella contorta Jankowski, 1964, based on broad geographic sampling. European Journal of Protistology 59: 133–154. (IF 2.626) https://doi.org/10.1016/j.ejop.2016.11.002

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Bourland, W.A., Rotterová, J., Čepička, I., 2017. Morphologic and molecular characterization of seven species of the remarkably diverse metopid genus Urostomides (Armophorea, Ciliophora). European Journal of Protistology 61: 194–232. (IF 2.626) https://doi.org/10.1016/j.ejop.2017.07.003

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For laboratory protocols developed together with international collaborators, see protocols.io/researchers/johana-rotterova/publications.

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​**Listed as one of the most downloaded articles of JEM in 2017, generating immediate impact and raising visibility of the journal.