2024
Foučková M., Uhrová K., Kubánková A., Pánek T., Čepička I. (2024). Lighting lantern above Psalteriomonadidae: Unveiling novel diversity within the genus Psalteriomonas (Discoba: Heterolobosea). European Journal of Protistology 93: 126052. (Journal Impact Factor 2022 = 2.9)
DOI: 10.1016/j.ejop.2024.126052.
Rotterová* J., Pánek T.*, Salomaki* E.D., Kotyk M., Táborský P., Kolísko M., 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 191: 107991. (Journal Impact Factor 2022 = 4.1, authors marked by * contributed equally)
DOI: 10.1016/j.ympev.2023.107991.
Del Campo J., Carlos-Oliveira M., Čepička I., Hehenberger E., Horák A., Karnkowska A., Kolisko M., Lara E., Lukeš J., Pánek T., Piwosz K., Richter D.J., Škaloud P., Sutak R., Tachezy J, Hampl, V. (2024) The protist cultural renaissance. Trends in Microbiology 32: 128-131. (Journal Impact Factor 2022 = 15.9)
DOI: 10.1016/j.tim.2023.11.010.
Jones R.E., Tice A.K., Eliáš M., Eme L., Kolísko M., Nenarokov S., Pánek T., Rokas A., Salomaki E., Strassert J.F.H., Shen X.X., Žihala D., Brown, M. W. (2024) Create, Analyze, and Visualize Phylogenomic Datasets Using PhyloFisher. Current Protocols, 4: e969.
2023
Sheikh S., Pánek T., Gahura O., Týč J., Záhonová K., Lukeš J., Eliáš M., Hashimi, H. (2023). A novel group of dynamin-related proteins shared by eukaryotes and giant viruses is able to remodel mitochondria from within the matrix. Molecular Biology and Evolution 40: msad134. (Journal Impact Factor 2022 = 10.7)
DOI: 10.1093/molbev/msad134.
2022
Ožana S, Dolný A, Pánek T (2022) Nuclear copies of mitochondrial genome as a potential problem for phylogenetic and population genetic studies of Odonata. Systematic Entomology 47: 591–602. (Journal Impact Factor 2022 = 4.8)
DOI: https://doi.org/10.1111/syen.12550
Pilátová J., Pánek T., Oborník M., Čepička I., Mojzeš P (2022) Revisiting biocrystallization: purine crystalline inclusions are widespread in eukaryotes. The ISME Journal 16: 2290-2294. (Journal impact Factor 2022 = 11.0) DOI: 10.1038/s41396-022-01264-1.
Azuma T, Pánek T, Tice AK, Kayama M, Kobayashi M, Miyashita H, Suzaki T, Yabuki A, Brown MW, Kamikawa R. (2022) An enigmatic stramenopile sheds light on early evolution in Ochrophyta plastid organellogenesis. Molecular Biology and Evolution 39: msac065. (Journal Impact Factor 2022 = 10.7)
DOI: 10.1093/molbev/msac065.
Pánek T, Barcytė D, Treitli SC, Záhonová K, Sokol M, Ševčíková T, Zadrobílková E, Jaške K, Yubuki N, Cepicka I, Eliáš M. (2022) A new lineage of non-photosynthetic green algae with extreme organellar genomes. BMC Biology 20:66. (Journal Impact Factor 2022 = 5.4)
DOI: 10.1186/s12915-022-01263-w
2021
Tice AK*, Žihala D*, Pánek T*, Jones RE, Salomaki ED, Nenarokov S, Burki F, Eliáš M, Eme L, Roger AJ, Rokas A, Shen XX, Strassert JFH, Kolísko M, Brown MW (2021) PhyloFisher: A phylogenomic package for resolving eukaryotic relationships. PLoS Biology 19(8): e3001365. (Journal Impact Factor 2020 = 8.029, authors marked by * contributed equally)
DOI: doi.org/10.1371/journal.pbio.3001365
Stairs CW, Táborský P, Salomaki ED, Kolisko M, Pánek T, Eme L, Hradilová M, Vlček Č, Jerlström-Hultqvist J, Roger AJ, Čepička I. (2021) Anaeramoebae are a divergent lineage of eukaryotes that shed light on the transition from anaerobic mitochondria to hydrogenosomes. Current Biology, 31(24), 5605-5612. (Journal Impact Factor 2020 = 10.834)
DOI: 10.1016/j.cub.2021.10.010
Horváthová L*, Žárský V*, Pánek T*, Derelle R, Pyrih J, Motyčková A, Klápšťová V, Vinopalová M, Markova L, Voleman L, Klimeš V, Petrů M, Vaitová Z, Čepička I, Hryzáková K, Harant K, Gray M, Chami M, Guilvout I, Francetic OB, Lang F, Vlček Č, Tsaousis A, Elias M, Dolezal P. (2021) Analysis of diverse eukaryotes suggests the existence of an ancestral mitochondrial apparatus derived from the bacterial type II secretion system Nature Communications 19;12(1): 2947. (Journal Impact Factor 2019 = 12.121, authors marked by * contributed equally)
DOI: 10.1038/s41467-021-23046-7
Pyrih J, Pánek T, Durante I, Raskova V, Cimrhanzlová K, Kriegová E, Tsaousis A, Elias M, Lukes J. (2021) Vestiges of the bacterial signal recognition particle-based protein targeting in mitochondria. Molecular Biology and Evolution (available online). (Journal Impact Factor 2019 = 11.062)
DOI: 10.1093/molbev/msab090
Füssy Z, Vinopalová M, Treitli SC, Pánek T, Smejkalová P, Čepička I, Doležal P, Hampl V. (2021) Vertebrate retortamonads share features of anaerobic metabolism and pre-adaptations to parasitism with diplomonads. Parasitology International 82: 102308. (Journal Impact Factor 2019 = 1.866)
DOI: 10.1016/j.parint.2021.102308
2020
Kolisko M, Flegontova O,Karnkowska A, Lax G, Maritz JM, Pánek T, Táborský P, Carlton JM, Čepička I, Horák A, Lukeš J, Simpson AGB, Tai V. (2020) EukRef-Excavates: Seven curated SSU ribosomal RNA gene databases. Database: baaa080. (Journal Impact Factor 2019 = 2.593)
DOI: 10.1093/database/baaa080
Rotterová J, Salomaki E, Pánek T, Bourland W, Žihala D, Táborský P, Edgcomb VP, Beinart RA, Kolísko M, Čepička I. (2020) Genomics of New Ciliate Lineages Provides Insight into the Evolution of Obligate Anaerobiosis. Current Biology 30(11): P2037-P2050. (Journal Impact Factor 2019 = 9.601)
DOI: 10.1016/j.cub.2020.03.064
Pánek T, Eliáš M, Vancová M, Lukeš J, Hashimi H. (2020) Returning to the Fold for Lessons in Mitochondrial Crista Diversity and Evolution. Current Biology 30(10): R575-R588. (Journal Impact Factor 2019 = 9.601)
DOI: 10.1016/j.cub.2020.02.053
Pyrih J, Rašková V, Sveráková I, Pánek T, Lukeš J. (2020) ZapE/Afg1 interacts with Oxa1 and causes multifaceted phenotype. PLoS ONE 15(6): e0234918. (Journal Impact Factor 2018 = 2.776)
DOI: 10.1371/journal.pone.0234918
Kovalinka T, Pánek T, Kováčová B, Horváth A. (2020) Orientation of FtsH protease homologs in Trypanosoma brucei inner mitochondrial membrane and its evolutionary implications. Molecular & Biochemical Parasitology 238: 111282. (Journal Impact Factor 2018 = 2.158)
DOI: 10.1016/j.molbiopara.2020.111282
2012-2019
Publications co-authored by Tomáš Pánek before the lab was established
Karnkowska A., Treitli S.C., Brzoň O., Novák L., Vacek V., Soukal P., Barlow L.D., Herman E.K., Pipaliya S., Pánek T., Žihala D.,Petrželková R., Butenko A., Eme L., Stairs C.W., Roger A.J., Eliáš M., Dacks J.B.D., Hampl V. (2019). The oxymonad genome displays canonical eukaryotic complexity in the absence of a mitochondrion. Molecular Biology and Evolution 36(10), 2292-2312. (Journal Impact Factor 2018 = 14.797)
Lahr D.G., Kosakyan A., Lara E., Mitchell E.A.D., Morais L., Porfírio-Sousa A., Ribeiro G.M., Tice A.K., Pánek T., Kang S., Brown M.W. (2019). Phylogenomics and ancestral morphological reconstruction of Arcellinida testate amoebae demonstrate high diversity of microbial eukaryotes in the Neoproterozoic. Current Biology 29(6), 991-1001. (Journal Impact Factor 2018 = 9.193)
Táborský P., Pánek T., Čepička I. (2017). Anaeramoebidae fam. nov., a novel lineage of anaerobic amoebae and amoeboflagellates of uncertain phylogenetic position. Protist 168: 495-526. (Journal Impact Factor 2017 = 2.702)
Kang S., Tice A., Spiegel F., Silberman J., Pánek T., Čepička I., Kostka M., Kosakyan A., Alcantara D., Roger A., Shadwick L., Smirnov A., Kudryavstev A., Lahr D., Brown M.W. (2017). Between a pod and a hard test: the deep evolution of amoebae. Molecular Biology and Evolution 34: 2258-2270. (Journal Impact Factor 2017 = 10.217)
Ishemgulova A., Butenko A., Kortišová L., Boucinha C., Grybchuk-Ieremenko A., Morell K.A., Tesařová M., Kraeva N., Grybchuk D., Pánek T., Flegontov P., Lukeš J., Votýpka J., Opperdoes F.R., Spodareva V., d`Avila-Levy C.M., Kostygov A., Yurchenko V. (2017). Molecular mechanisms of thermal resistance of the insect trypanosomatid Crithidia thermophila. PLoS ONE 12: e0174165. (Journal Impact Factor 2017 = 2.766)
Pánek T., Žihala D., Sokol M., Derelle R., Klimeš V., Hradilová M., Zadrobílková E., Susko E., Roger A.J., Čepička I., Eliáš M. (2017). Nuclear genetic codes with a different meaning of the UAG and the UAA codon. BMC Biology 15:8. (Journal Impact Factor 2017 = 5.770)
Pánek T., Zadrobílková E., Walker G., Brown M. W., Gentekaki E., Hroudová M., Kang S., Roger A.J, Tice A.K., Vlček Č., Čepička, I. (2016). First multigene analysis of Archamoebae (Amoebozoa: Conosa) robustly reveals its phylogeny and shows that Entamoebidae represents a deep lineage of the group. Molecular Phylogenetics and Evolution 98: 41-51. (Journal Impact Factor 2016 = 4.419)
Pánek T., Táborský P., Pachiadaki M.G., Hroudová M., Vlček Č., Edgcomb V.P., Čepička I. (2015). Combined culture-based and culture-independent approaches provide insights into diversity of jakobids, an extremely plesiomorphic eukaryotic lineage. Frontiers in Microbiology 6: 1288. (Journal Impact Factor 2015 = 4.165)
Zhang Q., Táborský P., Silberman J. D., Pánek T., Čepička I., Simpson A.G. (2015). Marine Isolates of Trimastix marina form a plesiomorphic deep-branching lineage within Preaxostyla, separate from other known trimastigids (Paratrimastix n. gen.). Protist 166: 468-491. (Journal Impact Factor 2015 = 2.898)
Céza V., Pánek T., Smejkalová P., Čepička, I. (2015). Molecular and morphological diversity of the genus Hypotrichomonas (Parabasalia: Hypotrichomonadida), with descriptions of six new species. European Journal of Protistology 51: 158-172. (Journal Impact Factor 2015 = 2.553)
Yubuki N., Pánek T., Yabuki A., Čepička I., Takishita K., Inagaki Y., Leander B.S. (2015). Morphological Identities of Two Different Marine Stramenopile Environmental Sequence Clades: Bicosoeca kenaiensis (Hilliard, 1971) and Cantina marsupialis (Larsen and Patterson, 1990) gen. nov., comb. nov. Journal of Eukaryotic Microbiology 62: 532-542. (Journal Impact Factor 2015 = 2.738)
Pánek T., Simpson A.G., Hampl V., Čepička I. (2014). Creneis carolina gen. et sp. nov.(Heterolobosea), a novel marine anaerobic protist with strikingly derived morphology and life cycle. Protist 165: 542-567. (Journal Impact Factor 2014 = 3.045)
Pánek T., Ptáčková E., Čepička I. (2014). Survey on diversity of marine/saline anaerobic Heterolobosea (Excavata: Discoba) with description of seven new species. International Journal of Systematic and Evolutionary Microbiology 64: 2280-2304. (Journal Impact Factor 2014 = 2.511)
Pánek T., Silberman J.D., Yubuki N., Leander B.S., Cepicka I. (2012). Diversity, evolution and molecular systematics of the Psalteriomonadidae, the main lineage of anaerobic/microaerophilic heteroloboseans (Excavata: Discoba). Protist 163: 807-831. (Journal Impact Factor 2012 = 3.136)