Mgr. Aleš Horák, Ph.D.

Job Position: Head of Laboratory - Laboratory of environmental genomics

Contact details

Phone: +420 387775409
E-mail: ogar@paru.cas.cz
Room: PARU II

Description

In my recent research I focus mainly on different aspects of evolutionary biology of Protists. It could be divided into two areas. First deals with the biodiversity and evolutionary history of various groups of protists, ranging from katablepharids (Okamoto et al. 2009, PloS One), dinoflagellates (Okamoto et al., in prep.), colpodellids and apicomplexans (Howe et al., in prep.; Janouskovec et al., in prep) to leishmanias (Lukes et al. 2007, P.N.A.S.) or parabasalid termite-gut endosymbionts (Carpenter et al., 2010, Protist). In these projects, I've been  responsible mainly for describing and quantifiyng diversity and finding hierarchy in studied taxa using molecular markers (i.e. phylogenetic and population genetic analyses). Second part of my work have been so far dedicated to uncovering macroevolutionary processes shaping up eukaryotic Tree of Life. I am part of annotating team for the genome projects of Guillardia theta (Cryptophyta) and Bigellowiela natans (Chlorarachniophyta), two non-relative alga important by the presence of remnant endosymbiont genome called nucleomorph. I've also worked on comparative genomics of four nucleomorph genomes (Horak, in. prep) and comparative genomics of plastids of Chromera velia and relative algal lineage CCMP3155 (Janouskovec at al. 2010, P.N.A.S).

Curriculum vitae

 

Education and employment

  • 2011-present research scientist at Department of Moleculary Biology, University of South Bohemia, Faculty of Science
  • 2010-present post-doctoral fellow at Laboratory of Molecular Taxonomy, Institute of Parasitology Academy of Sciences of the Czech Republic
  • 2007-2010 post-doctoral fellow at University of British Columbia, Dept. of Botany, Keeling lab.
  • 2000 – 2007 (with exclusion of 2003 - 2004 when absolved Civil service) PhD student at Department of Zoology, Faculty of Sciences, University of South Bohemia.
  • 1994 – 2000 Student (Msc.) Faculty of Biological Sciences, University of South Bohemia

Courses and Workshops

  • June 2011 EuPathDB Workshop, UGA, Athens, GA, USA
  • June 2010 CIFAR Eukaryotic Genome Annotation Workshop, Dalhousie, Halifax, NS, Canada
  • May 2010 CIFAR BigData Workshop, UBC, Vancouver, BC, Canada
  • May 2008 IMG Microbial Genomics Workshop, JGI, Walnut Creek, CA, USA

Awards

  • Rector Award of the Best Publication of the Year 2010

Teaching





Publications
Total found: 29 records
Cihlář J., Füssy Z., Horák A., Oborník M. (2016) Evolution of the Tetrapyrrole Biosynthetic Pathway in Secondary Algae: Conservation, Redundancy and Replacement PLoS ONE 11 : e0166338.
DOI: 10.1371/journal.pone.0166338
Flegontova O., Flegontov P., Malviya S., Audic S., Wincker P., de Vargas C., Bowler C., Lukeš J., Horák A. (2016) Extreme diversity of diplonemid eukaryotes in the ocean Current Biology 26 : 3060-3065.
DOI: 10.1016/j.cub.2016.09.031

Documents to download:
Flegontova et al. 2016 CB (pdf)
de Vargas C., Audic S., Henry N., Decelle J., Mahé F., Logares R., Lara E., Berney C., Le Bescot N., Probert I., Carmichael M., Poulain J., Romac S., Colin S., Aury J., Bittner L., Chaffron S., Dunthorn M., Engelen S., Flegontova O., Guidi L., Horák A., Jaillon O., Lima-Mendez G., Lukeš J., Malviya S., Morard R., Mulot M., Scalco E., Siano R., Vincent F., Zingone A., Dimier C., Picheral M., Searson S., Kandels-Lewis S., Coordinators T., Acinas S., Bork P., Bowler C., Gorsky G., Grimsley N., Hingamp P., Iudicone D., Not F., Ogata H., Pesant S., Raes J., Sieracki M., Speich S., Stemmann L., Sunagawa S., Weissenbach J., Wincker P., Karsenti E. (2015) Eukaryotic plankton diversity in the sunlit ocean Science 348 : 1261605.
DOI: 10.1126/science.1261605

Documents to download:
deVargas-et-al_Science_2015 (pdf)
Lukeš J., Flegontova O., Horák A. (2015) Diplonemids Current Biology 25 : R702-R704.
DOI: 10.1016/j.cub.2015.04.052

Documents to download:
Lukes,Flegontova,Horak_CB_2015 (pdf)
Ševčíková T., Horák A., Klimeš V., Zbránková V., Demir-Hilton E., Sudek S., Jenkins J., Schmutz J., Přibyl P., Vlček Č., Lang B., Oborník M., Worden A., Eliáš M. (2015) Updating algal evolutionary relationships through plastid genome sequencing: did alveolate plastids emerge through endosymbiosis of an ochrophyte? Scientific Reports 5 : 10134.
DOI: 10.1038/srep10134
Woo Y., Ansari H., Otto T., Klinger C., Kolísko M., Michálek J., Saxena A., Shanmugam D., Tayyrov A., Veluchamy A., Ali S., Bernal A., Del C., Cihlář J., Flegontov P., Gornik S., Hajdušková E., Horák A., Janouškovec J., Katris N., Mast F., Miranda-Saavedra D., Mourier T., Naeem R., Nair M., Panigrahi A., Rawlings N., Regelado E., Ramaprasad A., Samad N., Tomčala A., Wilkes J., Neafsey D., Doerig C., Bowler C., Keeling P., Roos D., Dacks J., Templeton T., Waller R., Lukeš J., Oborník M., Pain A. (2015) "Chromerid genomes reveal the evolutionary path from photosynthetic algae to obligate intracellular parasites " eLife 4 : e06974.
DOI: 10.7554/eLife.06974

Documents to download:
Woo_et_al_eLife_2015 (pdf)
Janouškovec J., Horák A., Barott K., Rohwer F., Keeling P. (2013) Environmental distribution of coral-associated relatives of apicomplexan parasites. ISME journal 7 : 444-447.
DOI: 10.1038/ismej.2012.129
Koblížek M., Zeng Y., Horák A., Oborník M. (2013) Regressive Evolution of Photosynthesis in the Roseobacter Clade. Advances in Botanical Research 66 : 385-405.
Pomajbíková K., Oborník M., Horák A., Petrželková K., Grim J., Levecke B., Todd A., Mulama M., Kiyang J., Modrý D. (2013) Novel Insights into the Genetic Diversity of Balantidium and Balantidium-like Cyst-forming Ciliates. PLOS Neglected Tropical Diseases 7 : e2140.
DOI: 10.1371/journal.pntd.0002140

Documents to download:
Pomajbikova_et_al_2013 (pdf)
Janouškovec J., Horák A., Barott K., Rohwer F., Keeling P. (2012) Global analysis of plastid diversity reveals apicomplexan-related lineages in coral reefs. Current Biology 22 : R518–R519.
DOI: 10.1016/j.cub.2012.04.047
Mikulíček P., Horák A., Zavadil V., Kautman J., Piálek J. (2012) Hybridization between three crested newt species (Triturus cristatus superspecies) in the Czech Republic and Slovakia: comparison of nuclear markers and mitochondrial DNA. Folia Zoologica 61 : 202–218.
Okamoto N., Horák A., Keeling P. (2012) Description of two species of early branching dinoflagellates, Psammosa pacifica n. g., n. sp. and P. atlantica n. sp. PLoS ONE 7 : e34900.
DOI: 10.1371/journal.pone.0034900
Valenčáková A., Bálent P., Ravaszová P., Horák A., Oborník M., Halánová M., Malčeková B., Novotný F., Goldová M. (2012) Molecular identification and genotyping of Microsporidia in selected hosts. Parasitology Research 110 : 689-693.
DOI: 10.1007/s00436-011-2543-9
Votýpka J., Klepetková H., Yurchenko V., Horák A., Lukeš J., Maslov D. (2012) Cosmopolitan distribution of a trypanosomatid Leptomonas pyrrhocoris. Protist 163 : 616-631.
DOI: 10.1016/j.protis.2011.12.004

Documents to download:
2012_Votypka_Protist_616 (pdf)
Allen A., Dupont C., Oborník M., Horák A., Nunes-Nesi A., Mccrow J., Zheng H., Johnson D., Hu H., Fernie A., Bowler C. (2011) Evolution and metabolic significance of the urea cycle in photosynthetic diatoms. Nature 473 : 203–209.
DOI: 10.1038/nature10074
Černotíková E., Horák A., Moravec F. (2011) Phylogenetic relationships of some spirurine nematodes (Nematoda: Chromadorea: Rhabditida: Spirurina) parasitic in fishes inferred from SSU rRNA gene sequences. Folia Parasitologica 58 : 135–148.


Documents to download:
2011_Cernotikova_FP_135 (pdf)
Saldarriaga J., Gile G., James E., Horák A., Scheffrahn R., Keeling P. (2011) Morphology and molecular phylogeny of Pseudotrichonympha hertwigi and Pseudotrichonympha paulistana (Trichonymphea, Parabasalia) from neotropical rhinotermitids. Journal of Eukaryotic Microbiology 58 : 487–496.
DOI: 10.1111/j.1550-7408.2011.00575.x
Janouškovec J., Horák A., Oborník M., Lukeš J., Keeling P. (2010) A common red algal origin of the apicomplexan, dinoflagellate, and heterokont plastids. Proceedings of the National Academy of Sciences of the United States of America 107 : 10949–10954.
DOI: 10.1073/pnas.1003335107

Documents to download:
Janouskovec et al. 2010 PNAS (pdf)
Chroňáková A., Horák A., Elhottová D., Krištůfek V. (2009) Diverse archaeal community of a bat guano pile in Domica Cave (Slovak Karst, Slovakia). Folia Microbiologica 54 : 436–446.
DOI: 10.1007/s12223-009-0061-2
Chroňáková A., Horák A., Elhottová D., Krištůfek V. (2009) Diverse archaeal community of a bat guano pile in domica cave (Slovak karst, Slovakia) Folia Microbiologica 54 : 436-446.
DOI: 10.1007/s12223-009-0061-2

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CONTACT

Biology Centre CAS
Institute of Parasitology
Branišovská 1160/31
370 05 České Budějovice

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