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Vyacheslav Yurchenko

List of publications

    2025

  1. Záhonová, K., Mandage, R., Yurchenko, V.* Nuclear genome assembly and annotation of kinetoplastids. In: Euglenozoa: Methods and Protocols (Eds. P. Michels, M. Ginger, L.-I. McCall, A. Silber, A. Karnkowska), 2025, (accepted). * Correspondent author. PMID:
  2. Gerasimov, E.S., Valach, M., Burger, G., Záhonová, K.*, Yurchenko, V.* Assembly and annotation of kinetoplastid and diplonemid mitochondrial genomes. In: Euglenozoa: Methods and Protocols (Eds. P. Michels, M. Ginger, L.-I. McCall, A. Silber, A. Karnkowska), 2025, (accepted). * Co-correspondent authors. PMID:
  3. Hughes, H.R., Ballinger, M.J., Bao, Y., Bejerman, N., Blasdell, K.R., Briese, T., Brignone, J., Carrera, J.P., De Coninck, L., de Souza, W.M., Debat, H., Dietzgen, R.G., Dürrwald, R., Erdin, M., Fooks, A.R., Forbes, K.M., Freitas-Astúa, J., Garcia, J.B., Geoghegan, J.L., Grimwood, R.M., Horie, M., Hyndman, T.H., Johne, R., Klena, J.D., Kondo, H., Koonin, E.V., Kostygov, A.Y., Krupovic, M., Kuhn, J.H., Letko, M., Li, J.-M., Liu, Y., Martin, M.L., Mull, N., Nazar, Y., Nowotny, N., Nunes, M.R.T., Økland, A.L., Rubbenstroth, D., Russell, B.J., Schott, E., Seifert, S., Sen, C., Shedroff, E., Sironen, T., Smura, T., Dos Santos Tavares, C.P., Tesh, R.B., Tilston, N.L., Tordo, N., Vasilakis, N., Walker, P.J., Wang, F., Whitfield, A.E., Whitmer, S.L.M., Wolf, Y.I., Xia, H., Ye, G.-Y., Ye, Z., Yurchenko, V., Zhao, M., ICTV Taxonomy Summary Consortium. Summary of taxonomy changes ratified by the International Committee on Taxonomy of Viruses (ICTV) from the Animal dsRNA and ssRNA(−) viruses Subcommittee, 2025. J. Gen. Virol., 2025, (accepted). PMID:
  4. Lukeš, J., Čapková Pavlíková, Z., Yurchenko, V., Paris, Z., Valášek, L.S. Blastocrithidia – a genetic alien from the planet Earth. CSH Perspect. Biol. 2025, (accepted). PMID:
  5. Schoenle, A., Francis, O., Archibald, J.M. , Burki, F., de Vries, J., Dumack, K., Eme, L., Florent, I., Hehenberger, E., Hoffmeyer, T.T., Irisarri, I., Lara, E., Leger, M.M., Lukeš, J., Massana, R., Mathur, V., Nitsche, F., Strassert, J.F.H, Worden, A.Z., Yurchenko, V., del Campo, J., Waldvogel, A.-M. Protist genomics: key to understanding eukaryotic evolution. Trends Genet., 2025, (accepted). PMID: 40517085
  6. Tullume-Vergara, P., Ludwig, A., Yurchenko, V., Coelho, A., Coser, E., Krieger, M., Teixeira, M., Shaw, J., Alves, J. Comparative analysis of the mobilomes yields new insights into their diversity, dynamics and evolution in parasites of the Trypanosomatidae family. Parasitology, 2025, (accepted). PMID: 40509981
  7. Záhonová, K., Füssy, Z., Albanaz, A., Butenko, A., Kachale, A., Kraeva, N., Galan, A., Zakharova, A., Stojanova, B., Votýpka, J., Kostygov, A.Y., Spodareva, V., Malysheva, M.N., Frolov, A.O., Rogozin, I., Paris, Z., Valasek, L., Yurchenko, V.*, Lukeš, J.* Comparative genomic analysis of trypanosomatid protists illuminates an extensive change in the nuclear genetic code. mBio, 2025, 16(6): e0088525. * Co-correspondent authors. (Editor's pick). PMID: 40293238. PDF doi:10.1128/mbio.00885-25
  8. Galan, A., Kraeva, N., Záhonová, K., Butenko, A., Kostygov, A.Y., Paris, Z., Pergner, J., Bianchi, C., Fakih, F., Saura, A., Lukeš, J., Yurchenko, V.* Converting Blastocrithidia nonstop, a trypanosomatid with non-canonical genetic code, into a genetically-tractable model. Mol. Microbiol., 2025, 123(6): 586-592. * Correspondent author. PMID: 40205788. PDF doi:10.1111/mmi.15365
  9. Wiredu-Boakye, D., Higgins, L., Gahura, O., Butenko, A., Leonard, G., Freeman, M.A., Kristmundsson, A., Moore, K., Yurchenko, V., Williams, B.A.P., Harrison, J.W., MacDonald, S., Chahwan, R. Evolutionary insights into the length variation of DNA damage response proteins across eukaryotes. Genome Biol. Evol., 2025, 17(6): evaf089. PMID: 40388363. PDF doi:10.1093/gbe/evaf089
  10. Gerasimov, E.S., Afonin, D.A., Škodová-Sveráková, I., Saura, A., Trusina, N., Gahura, O., Zakharova, A., Butenko, A., Baráth, P., Horváth, A., Opperdoes, F.R., Pérez-Morga, D., Zimmer, S.L., Lukeš, J.*, Yurchenko, V.* Evolutionary divergent kinetoplast genome structure and RNA editing patterns in the trypanosomatid Vickermania. Proc. Natl. Acad. Sci. USA, 2025, 122(15): e2426887122. * Co-correspondent authors. PMID: 40203041. PDF doi:10.1073/pnas.2426887122
  11. Grybchuk, D., Kostygov, A.Y., Yurchenko, V.* Analysis of Leishbuviridae from trypanosomatids. In: Bunyaviruses: Methods and Protocols (Ed. H. Boshra), 2025, 2893: 151-167. ("Methods in Molecular Biology" Series v. 2893, Hardcover ISBN 978-1-0716-4337-2, Softcover ISBN 978-1-0716-4340-2, eBook ISBN 978-1-0716-4338-9, Series ISSN 1064-3745, Series E-ISSN 1940-6029). * Correspondent author. PMID: 39671036. PDF doi:10.1007/978-1-0716-4338-9_12

    12. 2024

  12. Kostygov, A.Y., Grybchuk, D., Heeren, S., Gerasimov, E.S., Klocek, D., Reddy, A., Sádlová, J., Pacáková, L., Kohl, A., Stejskal, F., Volf, P., Dujardin, J.-C., Yurchenko, V.* A novel strain of Leishmania braziliensis harbors not a toti- but a bunyavirus., PLoS Negl. Trop. Dis., 2024, 18(12): e0012767. PMID: 39729426. PDF doi:10.1371/journal.pntd.0012767
  13. Kostygov, A.Y., Skýpalová, K., Kraeva, N., Kalita, E., McLeod, C., Yurchenko, V., Field, M.C., Lukeš, J., Butenko, A. Comprehensive analysis of the Kinetoplastea intron landscape reveals a novel intron-containing gene and the first exclusively trans-splicing eukaryote. BMC Biol., 22, 281. PMID: 39627879. PDF doi:10.1186/s12915-024-02080-z
  14. Cadena, L.R., Hammond, M., Tesařová, M., Chmelová, L′., Svobodová, M., Durante, I.M., Yurchenko, V., Lukeš, J. A novel nabelschnur protein regulates segregation of the kinetoplast DNA in Trypanosoma brucei. Curr. Biol., 2024, 34: 4803-4812. PMID: 39321796. PDF doi:10.1016/j.cub.2024.08.044
  15. Jiménez-Mejías, P. and 1,562 additional co-authors including Yurchenko, V. Protecting stable biological nomenclatural systems enables universal communication: a collective international appeal. Bioscience, 74(7): 467-472. PMID: 39156614. PDF doi:10.1093/biosci/biae043
  16. Chmelová, L′., Kraeva, N., Saura, A., Krayzel, A., Vieira, C.S., Ferreira, T.N., Soares, R.P., Bučková, B., Galan, A., Horáková, E., Vojtková, B., Sádlová, J., Malysheva, M.N., Butenko, A., Prokopchuk, G., Frolov, A.O., Lukeš, J., Horváth, A., Škodová-Sveráková, I., Feder, D., Kostygov, A.Y., Yurchenko, V.* Intricate balance of dually-localized catalase modulates infectivity of Leptomonas seymouri (Kinetoplastea: Trypanosomatidae). Int. J. Parasitol., 2024, 54: 391-400. * Correspondent author. PMID: 38663543. PDF doi:10.1016/j.ijpara.2024.04.007
  17. Grybchuk, D., Galan, A., Klocek, D., Macedo, D.H., Wolf, Y.I., Votýpka, J., Butenko, A., Lukeš, J., Neri, U., Záhonová, K., Kostygov, A.Y., Koonin, E.V.*, Yurchenko, V.* Identification of diverse RNA viruses in Obscuromonas flagellates (Euglenozoa: Trypanosomatidae: Blastocrithidiinae). Virus Evol., 2024, 10(1): veae037. * Co-correspondent authors. PMID: 38774311. PDF doi:10.1093/ve/veae037
  18. Afonin, D.A., Gerasimov, E.S., Škodová-Sveráková, I., Záhonová, K., Gahura, O., Albanaz, A.T.S., Myšková, E., Bykova, A., Paris, Z., Lukeš, J., Opperdoes, F.R., Horváth, A., Zimmer, S.L.*, Yurchenko, V.* Blastocrithidia nonstop mitochondrial genome and its expression are remarkably insulated from nuclear codon reassignment. Nucl. Acids Res., 2024, 52: 3870–3885. * Co-correspondent authors. PMID: 38452217. PDF doi:10.1093/nar/gkae168
  19. Zavataro, A.L.E., Skýpalová, K., Vergara, P.O.T., Silva, F.M, Butenko, A., Yurchenko, V., Kostygov, A.Y., Alves, J.M.P. The genome of the endosymbiont-harboring trypanosomatid Kentomonas sorsogonicus. Protistology, 2024, 18(1): 72-81. PDF doi:10.21685/1680-0826-2024-18-1-7
  20. Rogozin, I.B., Saura, A., Poliakov, E., Bykova, A., Roche-Lima, A., Pavlov, Y.I., Yurchenko, V.* Properties and mechanisms of deletions, insertions, and substitutions in the evolutionary history of SARS-CoV-2. Int. J. Mol. Sci., 2024, 25: 3696. * Correspondent author. PMID: 38612505. PDF doi:10.3390/ijms25073696
  21. Usarov, G.X., Turitsin, V.S., Sattarova, X.G., Sádlová, J., ugli Mustanov, J.A., Saura, A., Yurchenko, V.* Phlebotomine sand fly (Diptera: Phlebotominae) diversity in the foci of cutaneous leishmaniasis in the Surxondaryo Region of Uzbekistan: 50 years on. Parasitol. Res., 2024, 123: 170. * Correspondent author. PMID: 38526739. PDF doi:10.1007/s00436-024-08191-4
  22. Chmelová, L′., Záhonová, K., Albanaz, A.T.S., Hrebenyk, L., Horváth, A., Yurchenko, V.*, Škodová-Sveráková, I.* Distribution and functional analysis of isocitrate dehydrogenases across kinetoplastids. Genome Biol. Evol., 2024, 16(3): evae042. * Co-correspondent authors. PMID: 38447055. PDF doi:10.1093/gbe/evae042
  23. Opperdoes, F.R., Záhonová, K., Škodová-Sveráková, I., Bučková, B., Chmelová, L′., Lukeš, J., Yurchenko, V.* In silico prediction of the metabolism of Blastocrithidia nonstop, a trypanosomatid with non-canonical genetic code. BMC Genomics, 2024, 25(1): 184. * Correspondent author. PMID: 38365628. PDF doi:10.1186/s12864-024-10094-8
  24. Kostygov, A.Y.*, Albanaz, A.T.S., Butenko, A., Gerasimov, E.S., Lukeš, J., Yurchenko, V.* Phylogenetic framework to explore trait evolution in Trypanosomatidae. Trends Parasitol., 2024, 40(2): 96-99. * Co-correspondent authors. PMID: 38065790. PDF doi:10.1016/j.pt.2023.11.009
  25. Kostygov, A.Y.*, Chmelová, L′., Reichl, J., Jászayová, A., Votýpka, J., Fuehrer, H.-P., Yurchenko, V.* Parasites of firebugs in Austria with focus on the "micro"-diversity of the cosmopolitan trypanosomatid Leptomonas pyrrhocoris. Parasitol. Res., 2024, 123(1): 27. * Co-correspondent authors. PMID: 38072883. PDF doi:10.1007/s00436-023-08080-2

    26. 2023

  26. Klocek, D., Grybchuk, D., Macedo, D.H., Galan, A., Votýpka, J., Schmid-Hempel, R., Schmid-Hempel, P., Yurchenko, V.*, Kostygov, A.Y.* RNA viruses of Crithidia bombi, a parasite of bumblebees. J. Invertebr. Pathol., 2023, 201: 107991. * Co-correspondent authors. PMID: 37714407. PDF doi:10.1016/j.jip.2023.107991
  27. Rêgo, F.D., da Silva, E.S., Lopes, V.V., Teixeira-Neto, R.G., Belo, V.S., Fonseca Júnior, A.A., Pereira, D.A., Pena, H.P., Laurenti, M.D., Flores, G.V.A., da Matta, V.L.R., Chouman, I.H., Burrin, T.B., Pacheco, C.M.S., Barrouin-Melo, S.M., de Pinho, F.A., de Andrade, H.A., Nunes, R.V., Gontijo, C.M.F., Soccol, V.T., Klocek, D., Grybchuk, D., Macedo, D.H., do Monte-Neto, R.L., Yurchenko, V., Soares, R.P. First report of putative Leishmania RNA virus 2 (LRV2) in Leishmania infantum strains from canine and human visceral leishmaniasis cases in the Southeast of Brazil. Mem. Inst. Oswaldo Cruz, 2023, 118: e230071. PMID: 37729273. PDF doi:10.1590/0074-02760230071
  28. Macedo, D.H., Grybchuk, D., Režnarová, J., Votýpka, J., Klocek, D., Yurchenko, T., Ševčík, J., Magri, A., Urda Dolinská, M., Záhonová, K., Lukeš, J., Servienė, E., Jászayová, A., Serva, S., Malysheva, M.N., Frolov, A.O., Yurchenko, V.*, Kostygov, A.Y.* Diversity of RNA viruses in the cosmopolitan monoxenous trypanosomatid Leptomonas pyrrhocoris. BMC Biol., 2023, 21(1): 191. * Co-correspondent authors. PMID: 37697369. PDF doi:10.1186/s12915-023-01687-y
  29. Albanaz, A.T.S., Carrington, M., Frolov, A.O., Ganyukova, A.I., Gerasimov, E.S., Kostygov, A.Y., Lukeš, J., Malysheva, M.N., Votýpka, J., Zakharova, A., Záhonová, K., Zimmer, S.L., Yurchenko, V.*, Butenko, A.* Shining the spotlight on the neglected: new high-quality genome assemblies as a gateway to understanding the evolution of Trypanosomatidae. BMC Genomics, 2023, 24: 471. * Co-correspondent authors. PMID: 37605127. PDF doi:10.1186/s12864-023-09591-z
  30. Gerasimov, E.S.*, Novozhilova, T.S., Zimmer, S.L., Yurchenko, V.* Kinetoplast genome of Leishmania spp. is under strong purifying selection. Trop. Med. Infect. Dis., 2023, 8(8): 384. * Co-correspondent authors. PMID: 37624322. PDF doi:10.3390/tropicalmed8080384
  31. Klocek, D., Grybchuk, D., Tichá, L., Votýpka, J., Volf, P., Kostygov, A.Y.*, Yurchenko, V.* Evolution of RNA viruses in trypanosomatids: new insights from the analysis of Sauroleishmania. Parasitol. Res., 2023, 122(10): 2279-2286. * Co-correspondent authors. PMID: 37490143. PDF doi:10.1007/s00436-023-07928-x
  32. Albanaz, A.T.S., Butenko, A., Kostygov, A.Y., Votýpka, J., Yurchenko, V. Transcriptome of Lafontella sp., an obscure relative of Phytomonas and Herpetomonas. Protistology, 2023, 17(2): 109-117. PDF doi:10.21685/1680-0826-2023-17-2-6
  33. Bykova, A., Saura, A., Glazko, G.V., Roche-Lima, A., Yurchenko, V.*, Rogozin, I.B. The 29-nucleotide deletion in SARS-CoV: truncated versions of ORF8 are under purifying selection. BMC Genomics, 2023, 24(1): 387. * Co-correspondent authors. PMID: 37430204. PDF doi:10.1186/s12864-023-09482-3
  34. Zakharova, A., Tashyreva, D., Butenko, A., Morales, J., Saura, A., Svobodová, M., Poschmann, G., Nandipati, S., Zakharova, A., Noyvert, D., Gahura, O., Týč, J., Stühler, K., Kostygov, A.Y.*, Nowack, E.C.M., Lukeš, J., Yurchenko, V.* A neo-functionalized homolog of host transmembrane protein controls localization of bacterial endosymbionts in the trypanosomatid Novymonas esmeraldas. Curr. Biol., 2023, 33(13): 2690-2701. * Co-correspondent authors. PMID: 37201521. PDF doi:10.1016/j.cub.2023.04.060
  35. Jászayová, A., Režnarová, J., Chovancová, G., Kostygov, A.Y., Yurchenko, V., Antolová, D., Zwijacz-Kozica, T., Csanády, A., Hurníková, Z. A study of oribatid mites as potential intermediate hosts of anoplocephalid tapeworms of Tatra chamois and Tatra marmots from the Tatra Mountains, Central Europe, and report of a new intermediate host for Andrya cuniculi, the parasite of Leporidae. Life, 2023, 13(4): 955. PMID: 37109484. PDF doi:10.3390/life13040955
  36. Novozhilova, T.S., Chistyakov, D.S., Akhmadishina, L.V., Lukashev, A.N., Gerasimov, E.S.*, Yurchenko, V.* Genomic analysis of Leishmania turanica strains from different regions of Central Asia. PLoS Negl. Trop. Dis., 2023, 17(3): e0011145. * Co-correspondent authors. PMID: 36877735. PDF doi:10.1371/journal.pntd.0011145
  37. Yurchenko, V.*, Chistyakov, D.S., Akhmadishina, L.V., Lukashev, A.N., Sádlová, J., Strelkova, M.V.* Revisiting epidemiology of leishmaniasis in Central Asia: lessons learnt. Parasitology, 2023, 150(2): 129-136. * Co-correspondent authors. PMID: 36453145. PDF doi:10.1017/S0031182022001640
  38. Kachale, A., Pavlíková, Z., Nenarokova, A., Roithová, A., Durante, I.M., Miletínová, P., Záhonová, K., Nenarokov, S., Votýpka, J., Horáková, E., Ross, R.L., Yurchenko, V., Beznosková, P., Paris, Z., Valášek, L.S., Lukeš, J. Short tRNA anticodon stem and mutant eRF1 allow stop codon reassignment. Nature, 2023, 613(7945): 751-758. (Cover paper). PMID: 36631608. PDF doi:10.1038/s41586-022-05584-2
  39. Rogozin, I.B.*, Saura, A., Bykova, A., Brover, V., Yurchenko, V.* Deletions across the SARS-CoV-2 genome: molecular mechanisms and putative functional consequences of deletions in accessory genes. Microorganisms, 2023, 11: 229. * Co-correspondent authors. PMID: 36677521. PDF doi:10.3390/microorganisms11010229

    40. 2022

  40. Magri, A.*, Bianchi, C., Chmelová, L′., Caffara, M., Galuppi, R., Fioravanti, M., Yurchenko, V.*, Kostygov, A.Y.* Roe deer (Capreolus capreolus) are a novel potential reservoir for human visceral leishmaniasis in the Emilia-Romagna region of Northeastern Italy. Int. J. Parasitol., 2022, 52(12): 745-750. * Co-correspondent authors. (Cover paper). PMID: 36265672. PDF doi:10.1016/j.ijpara.2022.09.002
  41. Kostygov, A.Y., Malysheva, M.N., Ganyukova, A.I., Razygraev, A.V., Drachko, D.O., Yurchenko, V., Agasoi, V.V., Frolov, A.O. The roles of mosquitoes in the circulation of monoxenous trypanosomatids in temperate climates. Pathogens, 2022, 11: 1326. PMID: 36422578. PDF doi:10.3390/pathogens11111326
  42. Gerasimov, E.S., Afonin, D.A., Korzhavina, O.A., Lukeš, J., Low, R., Hall, N., Tyler, K., Yurchenko, V.*, Zimmer, S.* Mitochondrial RNA editing in Trypanoplasma borreli: new tools, new revelations. Comput. Struct. Biotechnol. J., 2022, 20: 6388-6402. * Co-correspondent authors. PMID: 36420151. PDF doi:10.1016/j.csbj.2022.11.023
  43. Procházková, M., Füzik, T., Grybchuk, D., Yurchenko, V., Plevka, P. Virion structure of Leishmania RNA virus 1. Virology, 2022, 577: 149-154. PMID: 36371873. PDF doi:10.1016/j.virol.2022.09.014
  44. Belinky, F., Bykova, A. , Yurchenko, V.*, Rogozin, I. B.* No evidence for widespread positive selection on double substitutions within codons in primates and yeasts. Front. Genetics, 2022, 13: 991249. * Co-correspondent authors. PMID: 36159983. PDF doi:10.3389/fgene.2022.991249
  45. Saura, A., Zakharova, A., Klocek, D., Gerasimov, E.S., Butenko, A., Macedo, D.H., Servienė, E., Zagirova, D., Meshcheryakova, A., Rogozin, I.B., Serva, S., Kostygov, A.Y.*, Yurchenko, V.* Elimination of LRVs elicits different responses in Leishmania spp. mSphere, 2022, 7(4): e00335-22. * Co-correspondent authors. PMID: 35943162. PDF doi:10.1128/msphere.00335-22
  46. Grybchuk, D., Procházková, M., Füzik, T., Konovalovas, A., Serva, S., Yurchenko, V., Plevka, P. Structures of L-BC virus and its open particle provide insight into Totivirus capsid assembly. Commun. Biol., 2022, 5(1): 847. PMID: 35986212. PDF doi:10.1038/s42003-022-03793-z
  47. Ennes-Vidal, V., Antunes, D., Poláková, E., Yurchenko, V., Oliveira, S.S.C., Faria da Mota, F., Guimaraes, A.C.R., Caffarena, E.R., Santos , A.L.S, Branquinha, M.H., d’Avila-Levy, C.M. Differences in charge distribution in Leishmania tarentolae leishmanolysin result in a reduced enzymatic activity. Int. J. Mol. Sci., 2022, 23: 7660. PMID: 35887004. PDF doi:10.3390/ijms23147660
  48. Zakharova, A., Albanaz, A.T.S., Opperdoes, F.R., Škodová-Sveráková, I., Zagirova, D., Saura, A., Chmelová, L’., Gerasimov, E.S., Leštinová, T., Bečvář, T., Sádlová, J., Volf, P., Lukeš, J., Horváth, A., Butenko, A., Yurchenko, V.* Leishmania guyanensis M4147 as a new LRV1-bearing model parasite: phosphatidate phosphatase 2-like protein controls cell cycle progression and intracellular lipid content. PLoS Negl. Trop. Dis., 2022, 16(6): e0010510. * Correspondent author. PMID: 35749562. PDF doi:10.1371/journal.pntd.0010510
  49. Gerasimov, E.S., Ramirez-Barrios, R., Yurchenko, V., Zimmer, S.L. Trypanosoma cruzi strain and starvation-driven mitochondrial RNA editing and transcriptome variability. RNA, 2022, 28(7): 993-1012. PMID: 35470233. PDF doi:10.1261/rna.079088.121
  50. Kostygov, A.Y., Frolov, A.O., Malysheva, M.N., Ganyukova, A.I., Drachko, D., Yurchenko, V., Agasoy, V.V. Development of two species of the Trypanosoma theileri complex in tabanids. Parasit. Vectors, 2022, 15: 95. PMID: 35313955. PDF doi:10.1186/s13071-022-05212-y
  51. Chmelová, L’., Bianchi, C., Albanaz, A.T.S., Režnarová, J., Wheeler, R., Kostygov, A.Y., Kraeva, N., Yurchenko, V. Comparative analysis of three trypanosomatid catalases of different origin. Antioxidants, 2022, 11: 46. * Correspondent author. PMID: 35052550. PDF doi:10.3390/antiox11010046

    52. 2021

  52. Poláková, E., Albanaz, A.T.S., Zakharova, A., Novozhilova, T.S., Gerasimov, E.S., Yurchenko, V.* Ku80 is involved in telomere maintenance but dispensable for genomic stability in Leishmania mexicana. PLoS Negl. Trop. Dis., 2021, 15(12): e0010041. * Correspondent author. PMID: 34965251. PDF doi:10.1371/journal.pntd.0010041
  53. Kostygov, A.Y.*; Grybchuk, D., Kleschenko, Y., Chistyakov, D.S., Lukashev, A.N., Gerasimov, E.S., Yurchenko, V.* Analyses of Leishmania-LRV co-phylogenetic patterns and evolutionary variability of viral proteins. Viruses, 2021, 13(11): 2305. * Co-correspondent authors. PMID: 34835111. PDF doi:10.3390/v13112305
  54. Yurchenko, V.*, Butenko, A., Kostygov, A.Y.* Genomics of Trypanosomatidae: where we stand and what needs to be done? Pathogens, 2021, 10: 1124. * Co-correspondent authors. PMID: 34578156. PDF doi:10.3390/pathogens10091124
  55. Zakharova, A., Saura, A., Butenko, A., Podešvová, L., Warmusová, S., Kostygov, A.Y., Nenarokova, A., Lukeš, J., Opperdoes, F.R., Yurchenko, V.* A new model trypanosomatid Novymonas esmeraldas: genomic perception of its "Candidatus Pandoraea novymonadis" endosymbiont. mBio, 2021, 12(4): e01606-21. * Correspondent author. PMID: 34399629. PDF doi:10.1128/mBio.01606-21
  56. Kostygov, A.Y.*, Alves, J.M.P.*, Yurchenko, V.* Editorial: symbioses between protists and bacteria/archaea. Front. Microbiol., 2021, 12: 709184. * Co-correspondent authors. PMID: 34394058. PDF doi:10.3389/fmicb.2021.709184
  57. Konorov, E.A., Yurchenko, V., Patraman, I.V., Lukashev, A.N., Oyun, N.Y. The effects of genetic drift and genomic selection on differentiation and local adaptation of the introduced populations of Aedes albopictus in southern Russia. Peer J., 2021, 9: e11776. PMID: 34327056. PDF doi:10.7717/peerj.11776
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  61. Rogozin, I.B., Roche-Lima, A., Tyryshkin, K., Carrasquillo-Carrión, K., Lada, A.G., Poliakov, L.Y., Schwartz, E., Saura, A., Yurchenko, V.*, Cooper, D.N., Panchenko, A.R., Pavlov, Y.I.* DNA methylation, deamination and translesion synthesis combine to generate footprint mutations in cancer driver genes in B-cell derived lymphomas and other cancers. Front. Genetics, 2021, 12: 671866. * Co-correspondent authors. PMID: 34093666. PDF doi:10.3389/fgene.2021.671866
  62. Frolov, A.O.*, Kostygov,A.Y.*, Yurchenko, V.* Development of monoxenous trypanosomatids and phytomonads in insects. Trends Parasitol., 2021, 37(6): 538-551. * Co-correspondent authors. PMID: 33714646. PDF doi:10.1016/j.pt.2021.02.004
  63. Gerasimov, E.S., Gasparyan, A.A., Afonin, D.A., Zimmer, S.L., Kraeva, N., Lukeš, J., Yurchenko, V., Kolesnikov, A. Complete minicircle genome of Leptomonas pyrrhocoris reveals a source of its non-canonical mitochondrial RNA editing events. Nucl. Acids Res., 2021, 49(6): 3354-3370. PMID: 33660779. PDF doi:10.1093/nar/gkab114
  64. Albanaz, A.T.S.; Gerasimov, E.S.; Shaw, J.J.; Sádlová, J.; Lukeš, J.; Volf, P.; Opperdoes, F.R.; Kostygov, A.Y.; Butenko, A.*; Yurchenko, V.* Genome analysis of Endotrypanum and Porcisia spp., closest phylogenetic relatives of Leishmania, highlights the role of amastins in shaping pathogenicity. Genes. 2021, 12(3): 444. * Co-correspondent authors. PMID: 33804709. PDF doi:10.3390/genes12030444
  65. Charyyeva, A., Çetinkaya, Ü., Özkan. B., Şahin, S., Yaprak, N., Şahin, I., Yurchenko, V.*, Kostygov, A.Y.* Genetic diversity of Leishmania tropica: unexpectedly complex distribution pattern. Acta Trop., 2021, 218: 105888. * Co-correspondent authors. PMID: 33713626. PDF doi:10.1016/j.actatropica.2021.105888
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  67. Kostygov, A.Y., Karnkowska, A., Votýpka, J., Tashyreva, D., Maciszewski, K., Yurchenko, V., Lukeš, J. Euglenozoa: taxonomy, diversity and ecology, symbioses and viruses. Open Bio., 2021, 11: 200407. PMID: 33715388. PDF doi:10.1098/rsob.200407
  68. Lukeš, J., Tesařová, M., Yurchenko, V., Votýpka, J. Characterization of a new cosmopolitan genus of trypanosomatid parasites, Obscuromonas gen. nov. (Blastocrithidiinae subfam. nov.). Eur. J. Protistol., 2021, 79: 125778. PMID: 33706204. PDF doi:10.1016/j.ejop.2021.125778
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  70. Opperdoes, F.R.*, Butenko, A., Zakharova, A., Gerasimov, E.S., Zimmer, S.L., Lukeš, J., Yurchenko, V.* The remarkable metabolism of Vickermania ingenoplastis: genomic predictions. Pathogens, 2021, 10: 68. * Co-correspondent authors. PMID: 33466586. PDF doi:10.3390/pathogens10010068
  71. Procházková, M., Füzik, T., Grybchuk, D., Falginella, F., Podešvová, L., Yurchenko, V., Vácha, R., Plevka, P. Capsid structure of Leishmania RNA virus 1. J. Virol., 2021, 95(3): e01957-20. PMID: 33208443. PDF doi:10.1128/JVI.01957-20
  72. Butenko, A., Hammond, M., Field, M., Ginger, M., Yurchenko, V., Lukeš, J. Reductionist pathways for parasitism in euglenozoans? Expanded datasets provide new insights. Trends Parasitol., 2021, 37(2): 100-116. PMID: 33127331. PDF doi:10.1016/j.pt.2020.10.001

    73. 2020

  73. Durante, I., Butenko, A., Rašková, V., Charyyeva, A., Svobodová, M., Yurchenko, V., Hashimi, H., Lukeš, J. Large-scale phylogenetic analysis of trypanosomatid adenylate cyclases reveals associations with extracellular lifestyle and host-pathogen interplay. Genome Biol. Evol., 2020, 12(12): 2403-2416. PMID: 33104188. PDF doi:10.1093/gbe/evaa226
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  75. Ravoitytė, B., Lukša, J., Yurchenko, V., Serva, S., Servienė, E. Saccharomyces paradoxus transcriptional alterations in cells of distinct phenotype and viral dsRNA content. Microorganisms, 2020, 8: 1902. PMID: 33266158. PDF doi:10.3390/microorganisms8121902
  76. Votýpka, J., Kment, P., Yurchenko, V., Lukeš, J. Endangered monoxenous trypanosomatid parasites: a lesson from island biogeography. Biodivers. Conserv., 2020, 29: 3635-3667. PDF doi:10.1007/s10531-020-02041-2
  77. Dobenecker, M.-W., Marcello, J., Becker, A., Rudensky, E., Bhanu, N.V., Carrol, T., Garcia, B.A., Prinjha, R., Yurchenko, V.*, Tarakhovsky, A.* The catalytic domain of the histone methyltransferase NSD2/MMSET is required for the generation of B1 cells in mice. FEBS Lett., 2020, 594: 3324-3337. * Co-correspondent authors. PMID: 32862441. PDF doi:10.1002/1873-3468.13903
  78. Füssy, Z., Záhonová, K., Tomčala, A., Krajčovič, J., Yurchenko, V., Oborník, M., Eliáš, M. The cryptic plastid of Euglena longa defines a new type of nonphotosynthetic plastid organelles. mSphere, 2020, 5(5): e00675-20. (Editor's pick). PMID: 33087518. PDF doi:10.1128/mSphere.00675-20
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  80. Škodová-Sveráková, I., Záhonová, K., Bučková, B., Füssy, Z., Yurchenko, V., Lukeš, J. Catalase and ascorbate peroxidase in euglenozoan protists. Pathogens, 2020, 9: 317. PMID: 32344595. PDF doi:10.3390/pathogens9040317
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  82. Polanska, N., Ishemgulova, A., Volfová, V., Flegontov, P., Votýpka, J., Yurchenko, V., Volf, P. Sergentomyia schwetzi: salivary gland transcriptome, proteome and enzymatic activities in two lineages adapted to different blood sources. PLoS One, 2020, 15(3): e0230537. PMID: 32208452. PDF doi: 10.1371/journal.pone.0230537
  83. Aphasizheva, I., Alfonzo, J., Carnes, J., Cestari, I., Cruz-Reyes, J., Ulrich Göringer, H., Hajduk, S., Lukeš,J., Madison-Antenucci, S., Maslov, D.A., McDermott, S.M., Ochsenreiter, T., Read, L.K., Salavati, R., Schnaufer, A., Schneider, A., Simpson, L., Stuart, K., Yurchenko, V., Zhou, Z.H., Zíková, A., Zhang, L., Zimmer, S., Aphasizhev, R. Lexis and grammar of mitochondrial RNA processing in trypanosomes. Trends Parasitol., 2020, 36(4): 337-355. PMID: 32191849. PDF doi:10.1016/j.pt.2020.01.006
  84. Horáková, E., Faktorová, D., Kraeva, N., Kaur, B., Van Den Abbeele, J., Yurchenko, V., Lukeš, J. Catalase compromises the development of the insect and mammalian stages of Trypanosoma brucei. FEBS J., 2020, 287: 964-977. PMID: 31593329. PDF doi:10.1111/febs.15083
  85. Alexandre, J., Sádlová, J., Leštinová, T., Vojtková, B., Jančářová, M., Podešvová, L., Yurchenko, V., Dantas-Torres, F., Brandao-Filho, S.P., Volf, P. Experimental infections and co-infections with Leishmania braziliensis and Leishmania infantum in two sand fly species, Lutzomyia migonei and Lutzomyia longipalpis. Sci. Rep., 2020, 10: 3566. PMID: 32108151. PDF doi: 10.1038/s41598-020-60600-7
  86. d’Avila-Levy, C.M., Bearzatto, B., Ambroise, J., Helaers, R., Butenko, A., Yurchenko, V., Morelli, K.A., Santos, H.L.C., Brouillard, P., Grellier, P., Gala, J.-L., Vikkula, M. First draft genome of the trypanosomatid Herpetomonas muscarum ingenoplastis through MinION Oxford Nanopore technology and Illumina sequencing. Trop. Med. Infect. Dis., 2020, 5: 25. PMID: 32069939. PDF doi:10.3390/tropicalmed5010025
  87. Gerasimov, E.S.*, Zamyatnina, K.A., Matveeva, N.S., Rudenskaya, Y.A., Kraeva, N., Kolesnikov, A.A., Yurchenko, V.* Common structural patterns in the maxicircle divergent region of Trypanosomatidae. Pathogens, 2020, 9: 100. * Co-correspondent authors. PMID: 32033466. PDF doi:10.3390/pathogens9020100
  88. Grybchuk, D., Macedo, D.H., Kleschenko, Y., Kraeva, N., Lukashev, A.N., Bates, P.A., Kulich, P., Leštinová, T., Volf, P., Kostygov, A.Y.*, Yurchenko, V.* The first non-LRV RNA virus in Leishmania. Viruses, 2020, 12: 168. * Co-correspondent authors. PMID: 32024293. PDF doi:10.3390/v12020168
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  90. Frolov, A.O., Malysheva, M.N., Ganyukova, A.I., Spodareva, V.V., Králová, J., Yurchenko, V., Kostygov, A.Y. If host is refractory, insistent parasite goes berserk: trypanosomatid Blastocrithidia raabei in the true bug Coreus marginatus. PLoS One, 2020, 15(1): e0227832. PMID: 31945116. PDF doi:10.1371/journal.pone.0227832

    91. 2019

  91. Králová, J., Grybchuk-Ieremenko, A., Votýpka, J., Novotný, V., Kment, P., Lukeš, J., Yurchenko, V.*, Kostygov, A.Y. Insect trypanosomatids in Papua New Guinea: high endemism and diversity. Int. J. Parasitol., 2109, 49: 1075-1086. * Co-correspondent authors. PMID: 31734337. PDF doi:10.1016/j.ijpara.2019.09.004
  92. He, C.Y., Singh, A., Yurchenko, V. Cell cycle-dependent flagellar disassembly in a firebug trypanosomatid Leptomonas pyrrhocoris. mBio, 2019, 10(6): e02424-19. PMID: 31772053. PDF doi:10.1128/mBio.02424-19
  93. Kraeva, N., Leštinová, T., Ishemgulova, A., Majerová, K., Butenko, A., Vaselek, S., Bespyatykh, J., Charyyeva, A., Spitzová, T., Kostygov, A.Y., Lukeš, J., Volf, P., Votýpka, J., Yurchenko, V.* LmxM.22.0250-encoded dual specificity protein/lipid phosphatase impairs Leishmania mexicana virulence in vitro. Pathogens, 2019, 8: E241. * Correspondent author. PMID: 31744234. PDF doi:10.3390/pathogens8040241
  94. Kleschenko, Y., Grybchuk, D., Matveeva, N.S., Macedo, D.H., Ponirovsky, E.N., Lukashev, A.N., Yurchenko, V.* Molecular characterization of LRV2 in Leishmania major from Uzbekistan. Genes, 2019, 10: E830. * Correspondent author. PMID: 31640177. PDF doi:10.3390/genes10100830
  95. Butenko, A., Kostygov, A.Y., Sádlová, J., Kleschenko, Y., Bečvář, T., Podešvová, L., Macedo, D.H., Žihala, D., Lukeš, J., Bates, P.A., Volf, P., Opperdoes, F.R., Yurchenko, V.* Comparative genomics of Leishmania (Mundinia). BMC Genomics, 2019, 20(1): 726. * Correspondent author. PMID: 31601168. PDF doi:10.1186/s12864-019-6126-y
  96. Gerasimov, E., Zemp, N., Schmid-Hempel, R., Schmid-Hempel, P.*, Yurchenko, V.* Genomic variation among strains of Crithidia bombi and C. expoeki. mSphere, 2019, 4(5): e00482-19. * Co-correspondent authors. PMID: 31511368. PDF doi:10.1128/mSphere.00482-19
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  98. Nenarokova, A., Záhonová, K., Krasilnikova, M., Gahura, O., McCulloch, R., Zíková, A., Yurchenko, V., Lukeš, J. Causes and effects of loss of classical non-homologous end joining pathway in parasitic eukaryotes. mBio, 2019, 10(4): e01541-19. (Editor's pick). PMID: 31311886. PDF doi:10.1128/mBio.01541-19
  99. Votýpka, J., Kment, P., Kriegová, E., Vermeji, M., Keeling, P., Yurchenko, V., Lukeš, J. High prevalence and endemism of trypanosomatids on a small carribean island. J. Euk. Microbiol., 2019, 66: 600-607. PMID: 30480347. PDF doi:10.1111/jeu.12704
  100. Frolov, A.O, Malysheva, M.N., Ganyukova, A.I., Spodareva, V.V., Yurchenko, V., Kostygov, A.Y. Development of Phytomonas lipae sp. n. (Kinetoplastea: Trypanosomatidae) in the true bug Coreus marginatus (Heteroptera: Coreidae) and insights into the evolution of life cycles in the genus Phytomonas. PLoS One, 2019, 14(4): e0214484. PMID: 30943229. PDF doi:10.1371/journal.pone.0214484
  101. Kostygov, A.Y., Butenko, A., Yurchenko, V.* On monoxenous trypanosomatids from lesions of immunocompetent patients with suspected cutaneous leishmaniasis in Iran. Trop. Med. Int. Health, 2019, 24(1): 127-128. * Correspondent author. PMID: 30307678. PDF doi:10.1111/tmi.13168
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    103. 2018

  103. Grybchuk, D., Kostygov, A.Y., Macedo, D.H., Votýpka, J., Lukeš, J., Yurchenko, V.* RNA viruses in Blechomonas (Trypanosomatidae) and evolution of Leishmaniavirus. mBio, 2018, 9(5): e01932-18. * Correspondent author. PMID: 30327446. PDF doi:10.1128/mBio.01932-18
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  106. Harmer, J., Yurchenko, V., Nenarokova, A., Lukeš, J., Ginger, M. Farming, slaving and enslavement: histories of endosymbioses during kinetoplastid evolution. Parasitology, 2018, 145(10): 1311-1323. (Cover paper). PMID: 29895336. PDF doi:10.1017/S0031182018000781
  107. Silva, F., Kostygov, A.Y., Spodareva, V., Butenko, A., Tossou, R., Lukeš, J., Yurchenko, V., Alves, J. The reduced genome of Candidatus Kinetoplastibacterium sorsogonicusi, the endosymbiont of Kentomonas sorsogonicus (Trypanosomatidae): loss of the heme synthesis pathway. Parasitology, 2018, 145(10): 1287-1293. PMID: 29642956. PDF doi:10.1017/S003118201800046X
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  110. Lukša, J., Vepštaite-Monstaviče, I., Yurchenko, V., Serva, S., Serviene, E. High content analysis of sea buckthorn, black chokeberry, red and white currants microbiota - a pilot study. Food Res Int, 2018, 111: 597-606. PMID: 30007724. PDF doi:10.1016/j.foodres.2018.05.060
  111. Yang, Y., Gao, Y., Zlatanou, A., Tateishi, S., Yurchenko, V., Rogozin, I., Vaziri, C. Diverse roles of RAD18 and Y-family DNA polymerases in tumorigenesis. Cell Cycle, 2018, 17 (7): 833-843. PMID: 29683380. PDF doi:10.1080/15384101.2018.1456296
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  113. Rogozin, I., Goncearenco, A., Lada, A., De, S., Yurchenko, V., Nudelman, G., Panchenko, A., Cooper, D., Pavlov, Y. DNA polymerase η mutational signatures are found in a variety of different types of cancer. Cell Cycle, 2018, 17(3): 348-355. PMID: 29139326. PDF doi:10.1080/15384101.2017.1404208
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  115. Grybchuk, D., Kostygov, A.Y., Macedo, D.H., d'Avila-Levy, C.M., Yurchenko, V.* RNA viruses in trypanosomatid parasites: a historical overview. Mem. Inst. Oswaldo Cruz, 2018, 113(4): e170487. * Correspondent author. PMID: 29513877. PDF doi:10.1590/0074-02760170487
  116. Ishemgulova, A., Hlaváčová, J., Majerová, K., Butenko, A., Lukeš, J., Votýpka, J., Volf, P., Yurchenko, V.* CRISPR/Cas9 in Leishmania mexicana: a case study of LmxBTN1. PLoS One, 2018, 13(2): e0192723. * Correspondent author. PMID: 29438445. PDF doi:10.1371/journal.pone.0192723
  117. Gerasimov, E.D., Gasparyan, A.A., Kaurov, I., Tichý, B., Logacheva, M.D., Kolesnikov, A.A., Lukeš, J., Yurchenko, V., Zimmer. S.L., Flegontov, P. Trypanosomatid mitochondrial RNA editing: dramatically complex transcript repertoires revealed with a dedicated mapping tool. Nucl. Acids Res., 2018, 46(2): 765-781. PMID: 29220521. PDF doi:10.1093/nar/gkx1202
  118. Butenko, A., da Silva Vieira, T., Frolov, A.O., Opperdoes, F.R., Soares, R.P., Kostygov, A.Y., Lukeš, J., Yurchenko, V.* Leptomonas pyrrhocoris: genomic insight into parasite's physiology. Curr. Genomics, 2018, 19(2): 150-156. * Correspondent author. PMID: 29491743. PDF doi:10.2174/1389202918666170815143331
  119. Grybchuk, D., Akopyants. N.S., Kostygov, A.Y., Konovalovas, A., Lye, L.-F., Dobson, D.E., Zangger, H., Fasel. N., Butenko, A., Frolov. A.O., Votýpka, J., d'Avila-Levy, C.M., Kulich, P., Moravcová, J., Plevka, P., Rogozin, I.B., Serva, S., Lukeš, J., Beverley, S.M.*, Yurchenko, V.* Viral discovery and diversity in trypanosomatid protozoa with a focus on relatives of the human parasite Leishmania. Proc. Natl. Acad. Sci. USA, 2018, 115(3): E506-E515. * Co-correspondent authors. PMID: 29284754. PDF doi:10.1073/pnas.1717806115
  120. Vepštaitė-Monstavičė, I., Lukša, J., Stanevičienė, R., Strazdaitė-Žielienė, Ž., Yurchenko, V., Serva, S., Servienė, E. Distribution of apple and blackcurrant microbiota in Lithuania and the Czech Republic. Microbiol. Res., 2018, 206: 1-8. PMID: 29146247. PDF doi:10.1016/j.micres.2017.09.004

    121. 2017

  121. Skalický, T., Dobáková, E., Wheeler, R., Tesařová, M., Flegontov, P., Jirsová, D., Votýpka, J., Yurchenko, V., Ayala, F., Lukeš, J. Extensive flagellar remodeling during the complex life cycle of Paratrypanosoma, an early-branching trypanosomatid. Proc. Natl. Acad. Sci. USA, 2017, 114: 11757-11762. PMID: 29078369. PDF doi:10.1073/pnas.1712311114
  122. Kostygov, A.Y., Butenko, A., Nenarokova, A., Tashyreva, D., Flegontov, P., Lukeš, J., Yurchenko, V.* Genome of Ca. Pandoraea novymonadis, an endosymbiotic bacterium of the trypanosomatid Novymonas esmeraldas. Front. Microbiol., 2017, 8: 1940. * Correspondent author. PMID: 29046673. PDF doi:10.3389/fmicb.2017.01940
  123. Ishemgulova, A., Kraeva, N., Hlaváčová, J., Zimmer, S., Butenko, A., Podešvová, L., Leštinová, T., Lukeš, J., Kostygov, A.Y., Votýpka, J., Volf, P., Yurchenko, V.* A putative ATP/GTP binding protein affects Leishmania mexicana growth in insect vectors and vertebrate hosts. PLoS Negl. Trop. Dis., 2017, 11(7): e0005782. * Correspondent author. PMID: 28742133. PDF doi:10.1371/journal.pntd.0005782
  124. Lukša, J., Ravoitytė, B., Konovalovas, A., Aitmanaitė, L., Butenko, A., Yurchenko, V., Serva, S., Servienė, E. Different metabolic pathways are involved in response of Saccharomyces cerevisiae to L-A and M viruses. Toxins, 2017, 9: e233. PMID: 28757599. PDF doi:10.3390/toxins9080233
  125. Kostygov, A.Y., Yurchenko, V.* Revised classification of the subfamily Leishmaniinae (Trypanosomatidae). Folia Parasitol., 2017, 64: 020. * Correspondent author. PMID: 28783029. PDF doi:10.14411/fp.2017.020
  126. Podešvová, L., Huang, H., Yurchenko, V.* Inducible protein stabilization system in Leishmania mexicana. Mol. Biochem. Parasitol., 2017, 214: 62-64. * Correspondent author. PMID: 28373094. PDF doi:10.1016/j.molbiopara.2017.03.008
  127. Kraeva, N., Horáková, E., Kostygov, A.Y., Kořený, L., Butenko, A., Yurchenko, V.*, Lukeš, J.* Catalase in Leishmaniinae: with me or against me? Infect. Genet. Evol., 2017, 50: 121-127. * Co-correspondent authors. PMID: 27381333. PDF doi:10.1016/j.meegid.2016.06.054
  128. Ishemgulova, A., Butenko, A., Kortišová, L., Boucinha, C., Grybchuk-Ieremenko, A., Morelli, K.A., Tesařová, M., Kraeva, N., Grybchuk, D., Pánek, T., Flegontov, P., Lukeš, J., Votýpka, J., Galvão Pavan, M., Opperdoes, F.R., Spodareva, V., d'Avila-Levy, C., Kostygov, A.Y.*, Yurchenko, V.* Molecular mechanisms of thermal resistance of the insect trypanosomatid Crithidia thermophila. PLoS One, 2017, 12(3): e0174165. * Co-correspondent authors. PMID: 28328988. PDF doi:10.1371/journal.pone.0174165
  129. Frolov, A., Malysheva, M., Ganyukova, A., Yurchenko, V., Kostygov, A.Y. Life cycle of Blastocrithidia papi sp. n. (Kinetoplastea, Trypanosomatidae) in Pyrrhocoris apterus (Hemiptera, Pyrrhocoridae). Eur. J. Protistol., 2017, 57: 85-98. PMID: 28073072. PDF doi:10.1016/j.ejop.2016.10.007

    130. 2016

  130. d'Avila-Levy, C., Yurchenko, V., Votýpka, J., Grellier, P. Protist collections: essential for future research. Trends Parasitol., 2016, 32: 840-842. PMID: 27612652. PDF doi:10.1016/j.pt.2016.08.001
  131. Záhonová, K., Kostygov, A.Y., Ševčíková, T., Yurchenko, V., Eliáš, M. An unprecedented non-canonical nuclear genetic code with all three termination codons reassigned as sense codons. Curr. Biol., 2016, 26: 2364-2369. PMID: 27593378. PDF doi:10.1016/j.cub.2016.06.064
  132. Opperdoes, F., Butenko, A., Flegontov, P., Yurchenko, V., Lukeš, J. Comparative metabolism of free-living Bodo saltans and parasitic trypanosomatids. J. Euk. Microbiol., 2016, 63(5): 657-678. PMID: 27009761. PDF doi:10.1111/jeu.12315
  133. Záhonová, K., Füssy, Z., Oborník, M., Eliáš, M., Yurchenko, V.* RuBisCO in non-photosynthetic alga Euglena longa: divergent features, transcriptomic analysis and regulation of complex formation. PLoS One, 2016, 11(7): e0158790. * Correspondent author. PMID: 27391690. PDF doi:10.1371/journal.pone.0158790
  134. Ishemgulova, A., Kraeva, N., Faktorová, D., Podešvová, L., Lukeš, J., Yurchenko, V.* T7 polymerase-driven transcription is downregulated in metacyclic promastigote and amastigote Leishmania mexicana. Folia Parasitol., 2016, 63: 016. * Correspondent author. PMID: 27311571. PDF doi:10.14411/fp.2016.016
  135. Flegontov, P., Butenko, A., Firsov. S., Kraeva, N., Eliáš, M., Field, M., Filatov, D., Flegontova, O., Gerasimov, E., Hlaváčová, J., Ishemgulova, A., Jackson, A., Kelly, S., Kostygov. A.Y., Logacheva, M., Maslov, D., Opperdoes, F., O'Reilly, A., Sádlová, J., Ševčíková, T., Venkatesh, D., Vlček, Č., Volf, P., Votýpka, J., Záhonová, K., Yurchenko, V.*, Lukeš, J.* Genome of Leptomonas pyrrhocoris: a high-quality reference for monoxenous trypanosomatids and new insights into evolution of Leishmania. Sci. Rep., 2016, 6: 23704. * Co-correspondent authors. PMID: 27021793. PDF doi:10.1038/srep23704
  136. Kostygov, A.Y., Dobáková, E., Grybchuk-Ieremenko, A., Váhala, D., Maslov, D., Votýpka, J., Lukeš, J.*, Yurchenko, V.* Novel trypanosomatid – bacterium association: evolution of endosymbiosis in action. mBio, 2016, 7(2): e01985-15. * Co-correspondent authors. PMID: 26980834. PDF doi:10.1128/mBio.01985-15
  137. Yurchenko, V.*, Kostygov, A.Y., Havlová, J., Grybchuk-Ieremenko, A., Ševčíková, T., Lukeš, J., Ševčík, J., Votýpka, J.* Diversity of trypanosomatids in cockroaches and the description of Herpetomonas tarakana sp. n. J. Euk. Microbiol., 2016, 63: 198-209. * Co-correspondent authors. PMID: 26352484. PDF doi:10.1111/jeu.12268
  138. Frolov, A., Malysheva, M., Yurchenko, V., Kostygov, A.Y. Back to monoxeny: Phytomonas nordicus descended from dixenous plant parasites. Eur. J. Protistol., 2016, 52 (1):1-10. PMID: 26555733. PDF doi:10.1016/j.ejop.2015.08.002

    139. 2015

  139. d'Avila-Levy, C., Boucinha, C., Kostygov, A.Y., Santos, H. L. C., Morelli, K. A., Grybchuk-Ieremenko, A., Duval, L., Votýpka, J., Yurchenko, V., Grellier, P., Lukeš, J. Exploring environmental diversity of kinetoplastid flagellates in the high-throughput DNA sequencing era. Mem Inst Oswaldo Cruz, 2015, 110(8): 956-965. PMID: 26602872. PDF doi:10.1590/0074-02760150253
  140. Kozminsky, E., Kraeva, N., Ishemgulova, A., Dobáková, E., Lukeš, J., Kment, P., Yurchenko, V., Votýpka, J., Maslov, D. Host-specificity of monoxenous trypanosomatids: statistical analysis of the distribution and transmission patterns of the parasites from Neotropical Heteroptera. Protist, 2015, 166(5): 551-568. PMID: 26466163. PDF doi:10.1016/j.protis.2015.08.004
  141. Kraeva, N., Butenko, A., Hlaváčová, J., Kostygov, A.Y., Myškova, J., Grybchuk, D., Leštinová, T., Votýpka, J., Volf, P., Opperdoes, F., Flegontov, P., Lukeš, J., Yurchenko, V.* Leptomonas seymouri: adaptations to the dixenous life cycle analyzed by genome sequencing, transcriptome profiling and co-infection with Leishmania donovani. PLoS Path., 2015, 11(8): e1005127. * Correspondent author. PMID: 226317207. PDF doi:10.1371/journal.ppat.1005127
  142. Hamilton, P., Votýpka, J., Dostálová, A., Yurchenko, V., Bird, N., Lukeš, J., Lemaitre, B., Perlman, S. Infection dynamics and immune response in a newly described Drosophila-trypanosomatid association. mBio, 2015, 6(5): e01356-15. PMID: 26374124. PDF doi:10.1128/mBio.01356-15
  143. Votýpka, J., d'Avila-Levy, C., Grellier, P., Maslov, D., Lukeš, J., Yurchenko, V.* New approaches to systematics of Trypanosomatidae: criteria for taxonomic (re)description. Trends Parasitol., 2015, 31: 460-469. * Correspondent author. PMID: 26433249. PDF doi:10.1016/j.pt.2015.06.015
  144. Losev, A., Grybchuk-Ieremenko, A., Kostygov, A.Y., Lukeš, J., Yurchenko, V.* Host specificity, pathogenicity and mixed infections of trypanoplasms from freshwater fishes. Parasitol. Res., 2015, 114:1071–1078. * Correspondent author. PMID: 25544706. PDF doi:10.1007/s00436-014-4277-y

    145. 2014

  145. Kraeva, N., Ishemgulova, A., Lukeš, J., Yurchenko, V.* Tetracycline-inducible gene expression system in Leishmania mexicana. Mol. Biochem. Parasitol., 2014, 198: 11-13. * Correspondent author. PMID: 25461484. PDF doi:10.1016/j.molbiopara.2014.11.002
  146. Grybchuk-Ieremenko, A., Losev, A., Kostygov, A.Y., Lukeš, J., Yurchenko, V.* High prevalence of trypanosome co-infections in freshwater fishes. Folia Parasitol., 2014, 61: 495-504. * Correspondent author. PMID: 25651690. PDF doi:10.14411/fp.2014.064
  147. Votýpka, J., Kostygov, A.Y., Kraeva, N., Grybchuk-Ieremenko, A., Tesařová, M., Grybchuk, D., Lukeš, J., Yurchenko, V.* Kentomonas gen. n., a new genus of endosymbiont-containing trypanosomatids of Strigomonadinae subfam. n. Protist, 2014, 165: 825-838. * Correspondent author. PMID: 25460233. PDF doi:10.1016/j.protis.2014.09.002
  148. Chistyakova, L., Kostygov, A.Y., Kornilova, O., Yurchenko, V.* Reisolation and redescription of Balantidium duodeni Stein, 1867 (Litostomatea, Trichostomatia). Parasitol. Res., 2014, 113: 4207–4215. * Correspondent author. PMID: 25185665. PDF doi:10.1007/s00436-014-4096-1
  149. Kostygov, A.Y., Grybchuk-Ieremenko, A., Malysheva, M., Frolov, A., Yurchenko, V.* Molecular revision of the genus Wallaceina. Protist, 2014, 165: 594-604. * Correspondent author. PMID: 25113831. PDF doi:10.1016/j.protis.2014.07.001
  150. Lukeš, J., Skalický, T., Týč, J., Votýpka, J., Yurchenko, V. Evolution of parasitism in kinetoplastid flagellates. Mol. Biochem. Parasitol., 2014, 195: 115-122. PMID: 24893339. PDF doi:10.1016/j.molbiopara.2014.05.007
  151. Yurchenko, V.*, Votýpka, J., Tesařová, M., Klepetková, H., Kraeva, N., Jirků, M., Lukeš, J. Ultrastructure and molecular phylogeny of four new species of monoxenous trypanosomatids from flies (Diptera: Brachycera) with redefinition of the genus Wallaceina. Folia Parasitol., 2014, 61: 97-112. * Correspondent author. PMID: 24822316. PDF doi:10.14411/fp.2014.023
  152. Záhonová, K., Hadariová, L., Vacula, R., Yurchenko, V., Eliáš, M., Krajčovič, J., Vesteg, M. A small portion of plastid transcripts is polyadenylated in the flagellate Euglena gracilis. FEBS Lett., 2014, 588: 783-788. PMID: 24492004. PDF doi:10.1016/j.febslet.2014.01.034

    153. 2013

  153. Votýpka, J., Suková, E., Kraeva, N., Ishemgulova, A., Duží, I., Lukeš, J., Yurchenko, V.* Diversity of trypanosomatids (Kinetoplastea: Trypanosomatidae) parasitizing fleas (Insecta: Siphonaptera) and description of a new genus Blechomonas gen. n. Protist, 2013, 164: 763-781. * Correspondent author. PMID: 24113136. PDF doi:10.1016/j.protis.2013.08.002
  154. Maslov, D., Votýpka, J., Yurchenko, V., Lukeš, J. Diversity and evolution of insect trypanosomatids: all that is hidden shall be revealed. Trends Parasitol., 2013, 29: 43-52. PMID: 23246083. PDF doi:10.1016/j.pt.2012.11.001

    155. 2012

  155. Jirkú, M., Yurchenko, V., Lukeš, J., Maslov, D. New species of insect trypanosomatids from Costa Rica and the proposal for a new subfamily within the Trypanosomatidae. J. Euk. Microbiol., 2012, 59: 537-547. PMID: 22845426. PDF doi:10.1111/j.1550-7408.2012.00636.x
  156. Votýpka, J., Klepetkova, H., Yurchenko, V., Horak, A., Lukeš, J., Maslov, D. Cosmopolitan distribution of a trypanosomatids Leptomonas pyrrhocoris. Protist, 2012, 163: 616–631. PMID: 22341645. PDF doi:10.1016/j.protis.2011.12.004

    157. 2010

  157. Maslov, D., Yurchenko, V., Jirkú, M., Lukeš, J. Two new species of trypanosomatid parasites isolated from Heteroptera in Costa Rica. J. Euk. Microbiol., 2010, 57(2): 177-188. PMID: 20113381. PDF doi:10.1111/j.1550-7408.2009.00464.x
  158. Votýpka, J., Maslov, D.A., Yurchenko, V., Jirkú, M., Kment, P., Lun, Z.R., Lukeš, J. Probing into the diversity of trypanosomatid flagellates parasitizing insect hosts in South-West China reveals both endemism and global dispersal. Mol. Phylogenet. Evol., 2010, 54: 243-253. PMID: 19835965. PDF doi:10.1016/j.ympev.2009.10.014
  159. Yurchenko, V., Constant, S., Eisenmesser, E., Bukrinsky, M. Cyclophilin/CD147 interactions: a new target for anti-inflammatory therapeutics. Clin. Exp. Immunol., 2010, 160: 305–317. PMID: 20345978. PDF doi:10.1111/j.1365-2249.2010.04115.x

    160. 2009

  160. Yurchenko, V., Lukeš, J., Jirkú, M., Maslov, D. Selective recovery of the cultivation-prone components from mixed trypanosomatid infections: a case of several novel species isolated from Neotropical Heteroptera. Int. J. Syst. Evol. Microbiol., 2009, 59(Pt 4): 893-909. (Cover paper). PMID: 19329626. PDF doi:10.1099/ijs.0.001149-0
  161. Schlegel, J., Redzic, J., Porter, C., Yurchenko, V., Bukrinsky, M., Labeikovsky, W., Armstrong, G., Zhang, F., Isern, N., De Gregori, J., Hodges, R., Eisenmesser, E. Solution characterization of the extracellular region of CD147 and its interaction with its enzyme ligand cyclophilin A. J. Mol. Biol, 2009, 391(3): 518-535. PMID: 19500591. PDF doi:10.1016/j.jmb.2009.05.080

    162. 2008

  162. Yurchenko, V., Lukeš, J., Tesařová, M., Jirkú, M., Maslov, D. Morphological discordance of the new trypanosomatid species phylogenetically associated with the genus Crithidia. Protist, 2008, 159: 99-114. PMID: 17931968. PDF doi:10.1016/j.protis.2007.07.003
  163. Bouzahzah, B., Yurchenko, V., Nagajyothi, F., Hulit, J., Sadofsky, M, Braunstein, V.L., Mukherjee, S., Weiss, H., Machado, F., Lisanti, M.P., Tanowitz, H.B., Albanese, C. Regulation of host cell cyclin D1 by Trypanosoma cruzi in myoblasts. Cell Cycle, 2008, 7(4): 500-503. PMID: 18239452. PDF doi:10.4161/cc.7.4.5327
  164. Yurchenko, V.*, Xue, Z., Sherry, B, Bukrinsky, M.* Functional analysis of Leishmania major cyclophilin. Int. J. Parasitol., 2008, 38(6): 633-639. * Co-correspondent authors. PMID: 17991468. PDF doi:10.1016/j.ijpara.2007.10.001
  165. Yurchenko, V.*; Xue, Z.; Gama, V.; Matsuyama; S., Sadofsky, M.* Ku70 is stabilized by increased cellular SUMO. Biochem. Biophys Res. Commun., 2008, 366: 263-268. * Co-correspondent authors. PMID: 18062920. PDF doi:10.1016/j.bbrc.2007.11.136

    166. 2007

  166. Ivanov, A., Peng, H., Yurchenko, V., Yap, K., Negorev, D., Schultz, D., Psulkowsky, E., Fredericks, W., White, D., Maul, G., Sadofsky, M., Zhou, M.-M., Rauscher, 3rd, F. PHD domain-mediated E3 ligase activity directs intramolecular Sumoylation of an adjacent Bromodomain required for gene silencing. Mol. Cell, 2007, 28: 823-837. PMID: 18082607. PDF doi:10.1016/j.molcel.2007.11.012
  167. Pushkarsky, T., Yurchenko, V., Laborico, A., Bukrinsky, M. CD147 stimulates HIV-1 infection in a signal-independent fashion. Biochem. Biophys Res. Commun., 2007, 363(3): 495-499. PMID: 17888876. PDF doi:10.1016/j.bbrc.2007.08.192

    168. 2006

  168. Yurchenko, V., Lukeš, J., Jirkú, M., Zeledon, R. and Maslov, D.A. Leptomonas costaricensis sp. n. (Kinetoplastea: Trypanosomatidae), a member of the novel phylogenetic group of insect trypanosomatids closely related to the genus Leishmania. Parasitology, 2006, 133: 537-546. (Cover paper). PMID: 16834819. PDF doi:10.1017/s0031182006000746
  169. Yurchenko, V., Lukeš, J., Xu, X. and Maslov, D.A. An integrated morphological and molecular approach to new species descriptions in Trypanosomatidae: the case of Leptomonas podlipaevi sp. n., a parasite of Boisea rubrolineata (Hemiptera: Rhopalidae). J. Euk. Microbiol., 2006, 53: 103-111. PMID: 16579812. PDF doi:10.1111/j.1550-7408.2005.00078.x
  170. Yurchenko, V., Xue, Z. and Sadofsky, M. SUMO modification of human XRCC4 regulates its localization and function in DNA double-strand break repair. Mol. Cell Biol., 2006, 26(5): 1786-1794. PMID: 16478998. PDF doi:10.1128/mcb.26.5.1786-1794.2006
  171. Yurchenko, V., Constant, S., Bukrinsky, M. Dealing with the Family: CD147 interactions with cyclophilins. Immunology, 2006, 117(3): 301-309. PMID: 16476049. PDF doi:10.1111/j.1365-2567.2005.02316.x

    172. 2005

  172. Yurchenko V., Pushkarsky T., Li J.H., Dai W.W., Sherry B., Bukrinsky M. Regulation of CD147 cell surface expression: involvement of the proline residue in the CD147 transmembrane domain. J. Biol. Chem., 2005, 280(17): 17013-17019. PMID: 15671024. PDF doi:10.1074/jbc.m412851200
  173. Pushkarsky T., Yurchenko V., Vanpouille C., Brichacek B., Vaisman I., Hatakeyama S., Nakayama K., Sherry B., and Bukrinsky M. Cell surface expression of CD147/emmprin is regulated by cyclophilin 60. J. Biol. Chem., 2005, 280(30): 27866-27871. PMID: 15946952. PDF doi:10.1074/jbc.m503770200

    174. 2003

  174. Yurchenko V., Xue Z., Sadofsky M. The RAG1 N-terminal domain is an E3 ubiquitin ligase. Genes Dev., 2003, 17: 581-585. PMID: 12629039. PDF doi:10.1101/gad.1058103
  175. Klinov, D., Martynkina, L., Yurchenko, V., Demin, V., Streltsov, S., Gerasimov, Y., Vengerov, Y. Effect of supporting substrates on the structure of DNA and DNA-Trivaline complexes studied by Atomic Force Microscopy. J. Bioorg. Chem (Mosc), 2003, 29: 363-367. PMID: 12947761. PDF doi:10.1023/a:1024901318099
  176. Martinkina, L., Yurchenko, V., Vengerov, Y. Protein-free spreading method for electron microscopic studies of DNA compaction stimulated by interactions with histone H1 in surface films. In: Science, Technology and Education of Microscopy: an Overview (Ed. A. Mendez-Vilas). Microscopy Series, 2003, 1: 469-475 (ISBN "Microscopy" Series 84-607-6679-7, ISBN Vol. I: 84-607-6698-5). PDF

    177. 2002

  177. Yurchenko V., Zybarth G., O’Connor M., Dai W.W., Franchin G., Hao T., Guo H., Hung H.-C., Toole B., Gallay P., Sherry B., Bukrinsky M. Active-site residues of cyclophilin A are crucial for its signaling activity via CD147. J. Biol. Chem., 2002, 277(25): 22959-22965. PMID: 11943775. PDF doi:10.1074/jbc.m201593200

    178. 2001

  178. Merzlyak, E., Yurchenko, V., Kolesnikov, A., Alexandrov, K., Podlipaev, S., Maslov, D. Diversity and phylogeny of insect trypanosomatids based on small subunit rRNA genes: polyphyly of Leptomonas and Blastocrithidia. J. Euk. Microbiol., 2001, 48: 161-169. PMID: 12095103. PDF doi:10.1111/j.1550-7408.2001.tb00298.x
  179. Yurchenko, V.*, Kolesnikov, A. Minicircular kinetoplast DNA of Trypanosomatidae. Mol. Biol. (Mosc), 2001, 35: 3-13. * Correspondent author. PMID: 11234380. PDF doi:10.1023/a:1004813414607
  180. Yurchenko V., O’Connor M., Dai W.W., Guo H., Toole B., Sherry B., Bukrinsky M. CD147 is a signaling receptor for Cyclophilin B. Biochem. Biophys Res. Commun., 2001, 288: 786-788. PMID: 11688976. PDF doi:10.1006/bbrc.2001.5847
  181. Pushkarsky T., Zybarth G., Dubrovsky L., Yurchenko V., Tang H., Guo H., Toole B., Sherry B., Bukrinsky M. CD147 facilitates HIV-1 infection by interacting with virus-associated cyclophilin A. Proc. Natl. Acad. Sci. USA, 2001, 98: 6360-6365. PMID: 11353871. PDF doi:10.1073/pnas.111583198

    182. 2000

  182. Yurchenko, V., Kolesnikov, A.A., Lukeš, J. Phylogenetic analysis of Trypanosomatina (Protozoa: Kinetoplastida) based on minicircle conserved regions. Folia Parasitol., 2000, 47: 1-5. PMID: 10833008. PDF doi:10.14411/fp.2000.001
  183. Martinkina, L., Klinov, D., Kolesnikov, A., Yurchenko V., Streltsov, S., Neretina, T., Demin, V., Vengerov, Y. Atomic force and electron microscopy of high molecular weight circular DNA complexes with synthetic oligopeptide trivaline. J. Biomol. Struct. Dynamics, 2000, 17: 687-695. PMID: 10698106. PDF doi:10.1080/07391102.2000.10506559

    184. 1999

  184. Yurchenko, V.*, Merzlyak, E., Kolesnikov, A., Martinkina, L., Vengerov, Y. Structure of Leishmania minicircle kinetoplast DNA classes. J. Clin. Microbiol., 1999, 35: 1656-1657. * Correspondent author. PMID: 10328690. PDF
  185. Yurchenko, V., Hobza, R., Benada, O., Lukeš, J. Trypanosoma avium: large minicircles in the kinetoplast DNA. Exp. Parasitol., 1999, 92: 215-218. (Cover paper). PMID: 10403763. PDF doi:10.1006/expr.1999.4418
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