prof. Ing. Miroslav Oborník, Ph.D.

Job Position: Head of Laboratory - Laboratory of Evolutionary Protistology

Contact details

Phone: +420 387775464
E-mail: obornik@paru.cas.cz
Room: 236

Description

Research interests

Evolution of protists and related algae.

Curriculum vitae

Education and employment

1985-1991: Student Ing. (MSc) , Faculty of Agriculture Ceské Budejovice, Agricultural University - Prague, specialization "Genetic Engineering and Plant Breeding"
1991: Fellowship , Faculty of Agriculture Ceské Budejovice, Agricultural University - Prague, Dept. of Plant Production, Division of Plant Protection
1991-1995: PhD student , Faculty of Agriculture, University of South Bohemia, Dept. of Plant Production, Division of Plant Protection
10/1995 - 12/1996: Civil service
1998 - 2000: Assistant Professor , Faculty of Agriculture, University of South Bohemia, Dept. of Plant Production, Division of Plant Protection
1998 - : Research scientist , Institute of Parasitology, Academy of Sciences of the Czech Republic, Division of Molecular Parasitology
2000 - : Research scientist, head of the laboratory , Institute of Parasitology (IP), Academy of Sciences of the Czech Republic, and University of South Bohemia (USB), Faculty of Biological Sciences - Laboratory of Molecular Taxonomy (joint laboratory of IP and USB)
2005-2008 Assistent Professor in Molecular and Cell Biology and Genetics, Faculty of Science, University of South Bohemia, České Budějovice
2008- present: Senior Research Scientist, Biology Centre ASCR, Institute of Parasitology
2008- present - Associate Professor in Molecular and Cell Biology and Genetics, Faculty of Science, University of South Bohemia, České Budějovice

Foreign programs

May - August 1993: Wageningen Agricultural University, Dept. of Entomology, The Netherlands(Dr. R. Stouthamer)
December 1994 - September 1995: Wageningen Agricultural University, Dept. of Entomology, The Netherlands(Dr. R. Stouthamer)
April - May 1997: University of Horticulture and Food Industry, Budapest, Hungary
November 2002 - November 2003: University of British Columbia, Department of Botany, Vancouver, Canada(Dr. B.R. Green)

Research priorities

MO is currently working on the evolution of secondary endosymbiosis. Many unicellular photoautotrophic eukaryotes (such as diatoms, heterokonts, cryptophytes, haptophytes, euglenoids) possess complex photosynthetic organelles that evolved during the process of secondary endosymbiogenesis. Such secondary (or complex) plastids are surrounded by three or four membranes. Nuclear-encoded proteins are postraslationally imported into the complex plastid via secretory pathway. We have participated on the annotation of the genome of diatom Thalassiosira pseudonana , particularly on the search of nuclear-encoded plastid targeted proteins, their in silico localization and phylogeny.
Complex plastid is also present in apicomplexan parasites, however, it is not photosynthetic in this case. The size of the apicomplexan plastid genome is extremely small (35 kb) thus offering a limited number of genes for phylogenetic analysis. Moreover, the sequences of apicoplast genes are highly AT rich and rapidly evolving. Although it is evident that the apicoplast and its genome is plastid-derived, our detailed phylogenetic analysis of amino acid and nucleotide sequences of selected apicoplast ribosomal protein genes rpl2 , rpl14 and rps12 show their possible mitochondrial origin. Based on our results, a hypothesis is proposed that apicoplasts might contain both plastid and mitochondrial genes, thus constituting a hybrid assembly.
MO is also involved in phylogenetic projets concerning molecular phylogeny of protozoa, e.g. microsporidia, apicomplexan parasites and kinteoplastids.

Hobby

Playing the guitar (music group - Smutný Karel )

Teaching Introduction to Bioinformatics
Faculty of Science, University of South Bohemia

Introduction to Bioinformatics exercises
Faculty of Science, University of South Bohemia

Molecular Taxonomy
Faculty of Agriculture, University of South Bohemia

Publications

Total found: 97 records
Turnšek J., Brunson J.K., Viedma M.D.P.M., Deerinck T.J., Horák A., Oborník M., Bielinski V.A., Allen A.E. (2021) Proximity proteomics in a marine diatom reveals a putative cell surface-to-chloroplast iron trafficking pathway eLife 10 : e52770. DOI: 10.7554/eLife.52770
Füssy Z., Záhonová K., Tomčala A., Krajčovič J., Yurchenko V., Oborník M., Eliáš M. (2020) The Cryptic Plastid of Euglena longa Defines a New Type of Nonphotosynthetic Plastid Organelle mSphere 5 : e00675-20. DOI: 10.1128/mSphere.00675-20
Gruber A., McKay C., Rocap G., Oborník M. (2020) Comparison of different versions of SignalP and TargetP for diatom plastid protein predictions with ASAFind Matters 2020 : e202005000001.
Horák A., Allen A.E., Oborník M. (2020) Common origin of ornithine–urea cycle in opisthokonts and stramenopiles Scientific Reports 10 : 16687. DOI: 10.1038/s41598-020-73715-8
Oborník M. (2020) Photoparasitism as an Intermediate State in theEvolution of Apicomplexan Parasites Trends in Parasitology 36 : 727-734. DOI: 10.1016/j.pt.2020.06.002
Sato S., Nanjappa D., Dorrell R.G., Vieira F.R.J., Kazamia E., Tirichine L., Veluchamy A., Heilig R., Aury J.M., Jaillon O., Wincker P., Füssy Z., Oborník M., Muñoz-Gómez S.A., Mann D., Bowler C., Zingone A. (2020) Genome-enabled Phylogenetic and Functional Reconstruction of an Araphid Pennate Diatom Plagiostriata Sp. CCMP470, Previously Assigned as a Radial Centric Diatom, and Its Bacterial Commensal Scientific Reports 10 : 9449. DOI: 10.1038/s41598-020-65941-x
Tomčala A., Michálek J., Schneedorferová I., Füssy Z., Gruber A., Vancová M., Oborník M. (2020) Fatty Acid Biosynthesis in Chromerids Biomolecules 10 : 1102. DOI: 10.3390/biom10081102
Tomečková L., Tomčala A., Oborník M., Hampl V. (2020) The Lipid Composition of Euglena gracilis Middle Plastid Membrane Resembles That of Primary Plastid Envelopes Plant Physiology 184 : 2052–2063. DOI: 10.1104/pp.20.00505
Cihlář J., Füssy Z., Oborník M. (2019) Evolution of tetrapyrrole pathway in eukaryotic phototrophs Advances in Botanical Research 90 : 273–309. DOI: 10.1016/bs.abr.2018.12.003
Coale T.H., Moosburner M., Horák A., Oborník M., Barbeau K.A., Allen A.E. (2019) Reduction-dependent siderophore assimilation in a model pennate diatom Proceedings of the National Academy of Sciences of United States of America 116 : 23609-23617. DOI: 10.1073/pnas.1907234116
Füssy Z., Faitová T., Oborník M. (2019) Subcellular Compartments Interplay for Carbon and Nitrogen Allocation in Chromera velia and Vitrella brassicaformis. Genome biology and evolution. 11 : 1765-1779. DOI: 10.1093/gbe/evz123
Jirsová D., Füssy Z., Richtová J., Gruber A., Oborník M. (2019) Morphology, ultrastructure, and mitochondrial genome of the marine non-photosynthetic bicosoecid Cafileria marina gen. et sp. nov. Microorganisms 7 : 240. DOI: 10.3390/microorganisms7080240
Oborník M. (2019) In the beginning was the word: How terminology drives our understanding of endosymbiotic organelles Microbial Cell 6 : 134–141. DOI: 10.15698/mic2019.02.669
Oborník M. (2019) Gurmánův pokrm zapomnění Vesmír 98 : 112–114.
Oborník M. (2019) Endosymbiotic Evolution of Algae, Secondary Heterotrophy and Parasitism Biomolecules 9 : 266. DOI: 10.3390/biom9070266
Oborník M. (2019) Evoluce parazitických výtrusovců z fotosyntetického předka Živa 6 : 287–289.
Sharaf A., De Michele R., Sharma A., Fakhari S., Oborník M. (2019) Transcriptomic Analysis Reveals the Roles of Detoxification Systems in Response to Mercury in Chromera velia Biomolecules 9 : 647. DOI: 10.3390/biom9110647
Sharaf A., Füssy Z., Tomčala A., Richtová J., Oborník M. (2019) Isolation of plastids and mitochondria from Chromera velia Planta 250 : 1731–1741. DOI: 10.1007/s00425-019-03259-3
Sharaf A., Gruber A., Jiroutová K., Oborník M. (2019) Characterization of Aminoacyl-tRNA Synthetases in Chromerids Genes 10 : 582. DOI: 10.3390/genes10080582
Smith S.R., Dupont C.L., McCarthy J.K., Boddrick J.T., Oborník M., Horák A., Füssy Z., Cihlář J., Kleessen S., Zheng H., McCrow J.P., Hixson K.K., Araújo W.L., Nunes-Nesi A., Fernie A., Nikoloski Z., Palsson B.O., Allen A.E. (2019) Evolution and regulation of nitrogen flux through compartmentalized metabolic networks in a marine diatom Nature Communications 10 : 4552. DOI: 10.1038/s41467-019-12407-y

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