Sequencing and molecular modeling identifies candidate members of Caliciviridae family in bats

Infection, Genetics and Evolution

Volumn 41, Issue , 2016, Pages 227-232

  Kemenesi, Gábor ^a   Gellért, Ákos ^b   Dallos, Bianka ^a   Görföl, Tamás ^c,d   Boldogh, Sándor ^e   Estók, Péter ^f   Marton, Szilvia ^d   Oldal, Miklós ^a   Martella, Vito ^g   Bányai, Krisztián ^d   Jakab, Ferenc ^a  

^a UNIVERSITY OF PÉCS   (Hungary)

^b AGRICULTURAL INSTITUTE   (Hungary)

^c DEPARTMENT OF ZOOLOGY   (Hungary)

^d INSTITUTE OF EXPERIMENTAL MEDICINE   (Hungary)

^e Nemzeti Park Igazgatosagok Hungary   (Hungary)

^f ESZTERHÁZY KÁROLY UNIVERSITY   (Hungary)

^g UNIVERSITY OF BARI   (Italy)

Author keywords

Bat; Calicivirus; Daubenton's bat; Europe; Hungary; Protein modeling; Serotine bat; Virus

Indexed keywords

ARTICLE; BAT; CALICIVIRIDAE; EPTESICUS SEROTINUS; FECES ANALYSIS; GENE SEQUENCE; MOLECULAR MODEL; MOLECULAR PHYLOGENY; MYOTIS; MYOTIS DAUBENTONII; NONHUMAN; PRIORITY JOURNAL; SAPOVIRUS; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; VIRUS IDENTIFICATION; VIRUS STRAIN; ALPHA HELIX; AMINO ACID SEQUENCE; ANIMAL; BETA SHEET; CALICIVIRIDAE INFECTIONS; CHEMISTRY; CLASSIFICATION; DISEASE CARRIER; FECES; GENE EXPRESSION; GENETICS; HIGH THROUGHPUT SEQUENCING; HUMAN; HUNGARY; ISOLATION AND PURIFICATION; PHYLOGENY; PIG; SEQUENCE ALIGNMENT; TRANSMISSION; VIROLOGY; VIRUS GENOME;

CAPSID PROTEIN; VIRUS RNA;

AMINO ACID SEQUENCE; ANIMALS; CALICIVIRIDAE; CALICIVIRIDAE INFECTIONS; CAPSID PROTEINS; CHIROPTERA; DISEASE RESERVOIRS; FECES; GENE EXPRESSION; GENOME, VIRAL; HIGH-THROUGHPUT NUCLEOTIDE SEQUENCING; HUMANS; HUNGARY; MODELS, MOLECULAR; PHYLOGENY; PROTEIN CONFORMATION, ALPHA-HELICAL; PROTEIN CONFORMATION, BETA-STRAND; RNA, VIRAL; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY, AMINO ACID; SWINE;

EID: 84963799138     PISSN: 15671348     EISSN: 15677257     Source Type: Journal    
DOI: 10.1016/j.meegid.2016.04.004     Document Type: Article

References (35)

1. Chevreux B., Wetter T., Suhai S. Genome sequence assembly using trace signals and additional sequence information. Proceedings of the German Conference on Bioinformatics, GCB'99 1999, 45-56. GCB, Hannover, Germany.
2. Di Martino B., Martella V., Di Profio F., Ceci C., Marsilio F. Detection of St-Valerien-like viruses in swine, Italy. Vet. Microbiol. 2011, 149:221-224.
3. Di Martino B., Di Profio F., Ceci C., Martella V., Lavazza A., Massirio I., Marsilio F. Seroprevalence of St-Valerien-like caliciviruses in Italian swine. J. Gen. Virol. 2012, 93:102-105.
4. Farkas T., Sestak K., Wei C., Jiang X. Characterization of a rhesus monkey calicivirus representing a new genus of Caliciviridae. J. Virol. 2008, 82:5408-5416.
5. Giammanco G.M., De Grazia S., Tummolo F., Bonura F., Calderaro A., Buonavoglia A., Martella V., Medici M.C. Norovirus GII.4/Sydney/2012 in Italy, winter 2012-2013. Emerg. Infect. Dis. 2013, 19:1348-1349.
6. Humphrey W., Dalke A., Schulten K. VMD - visual molecular dynamics. J. Mol. Graphs. 1996, 14:33-38.
7. Jiang X., Huang P.W., Zhong W.M., Farkas T., Cubitt D.W., Matson D.O. Design and evaluation of a primer pair that detects both Norwalk- and Sapporo-like caliciviruses by RT-PCR. J. Virol. Methods 1999, 83:145-154.
8. Kemenesi G., Dallos B., Görföl T., Boldogh S., Estók P., Kurucz K., Kutas A., Földes F., Oldal M., Németh V., Martella V., Bányai K., Jakab F. Molecular survey of RNA viruses in Hungarian bats: discovering novel astroviruses, coronaviruses, and caliciviruses. Vector Borne Zoonotic Dis. 2014, 12:846-855.
9. Kemenesi G., Dallos B., Görföl T., Estók P., Boldogh S., Kurucz K., Oldal M., Marton S., Bányai K., Jakab F. Genetic diversity and recombination within bufaviruses: detection of a novel strain in Hungarian bats. Infect. Genet. Evol. 2015, 33:288-292.
10. Kemenesi G., Zhang D., Marton S., Dallos B., Görföl T., Estók P., Boldogh S., Kurucz K., Oldal M., Kutas A., Bányai K., Jakab F. Genetic characterization of a novel picornavirus detected in Miniopterus schreibersii bats. J. Gen. Virol. 2015, 96:815-821.
11. Kohl C., Kurth A. European bats as carriers of viruses with zoonotic potential. Viruses 2014, 8:3110-3128.
12. L'Homme Y., Sansregret R., Plante-Fortier E., Lamontagne A.M., Ouardani M., Lacroix G., Simard C. Genomic characterization of swine caliciviruses representing a new genus of Caliciviridae. Virus Genes 2009, 39:66-75.
13. Li L., Pesavento P.A., Shan T., Leutenegger C.M., Wang C., Delwart E. Viruses in diarrhoeic dogs include novel kobuviruses and sapoviruses. J. Gen. Virol. 2011, 92:2534-2541.
14. Liao Q., Wang X., Wang D., Zhang D. Complete genome sequence of a novel calicivirus from a goose. Arch. Virol. 2014, 159:2529-2531.
15. Medici M.C., Tummolo F., Calderaro A., Chironna M., Giammanco G.M., De Grazia S., Arcangeletti M.C., De Conto F., Chezzi C., Martella V. Identification of the novel Kawasaki 2014 GII.17 human norovirus strain in Italy. Euro Surveill. 2015, 20(35):30011.
16. Mihalov-Kovács E., Gellért Á., Marton S., Farkas S.L., Fehér E., Oldal M., Jakab F., Martella V., Bányai K. Candidate new rotavirus species in sheltered dogs, Hungary. Emerg. Infect. Dis. 2015, 21:660-663.
17. Mikalsen A.B., Nilsen P., Frøystad-Saugen M., Lindmo K., Eliassen T.M., Rode M., Evensen O. Characterization of a novel calicivirus causing systemic infection in atlantic salmon (Salmo salar L.): proposal for a new genus of caliciviridae. PLoS One 2014, 9:e107132.
18. Oka T., Wang Q., Katayama K., Saif L.J. Comprehensive review of human sapoviruses. Clin. Microbiol. Rev. 2015, 28:32-53.
19. Ossiboff R.J., Zhou Y., Lightfoot P.J., Prasad B.V., Parker J.S. Conformational changes in the capsid of a calicivirus upon interaction with its functional receptor. J. Virol. 2010, 84:5550-5564.
20. Pinto P., Wang Q., Chen N., Dubovi E.J., Daniels J.B., Millward L.M., Buonavoglia C., Martella V., Saif L.J. Discovery and genomic characterization of noroviruses from a gastroenteritis outbreak in domestic cats in the US. PLoS One 2012, 2.
21. Prasad B.V., Hardy M.E., Dokland T., Bella J., Rossmann M.G., Estes M.K. X-ray crystallographic structure of the Norwalk virus capsid. Science 1999, 286:287-290.
22. Roy A., Kucukural A., Zhang Y. I-TASSER: a unified platform for automated protein structure and function prediction. Nat. Protoc. 2010, 5:725-738.
23. Sato G., Ido H., Kiuchi M., Kataoka M., Katayama K., Tohya Y. Characterization of St-Valerien-like virus genome detected in Japan. J. Vet. Med. Sci. 2014, 76:1045-1050.
24. Scheuer K.A., Oka T., Hoet A.E., Gebreyes W.A., Molla B.Z., Saif L.J., Wang Q. Prevalence of porcine noroviruses, molecular characterization of emerging porcine sapoviruses from finisher swine in the United States, and unified classification scheme for sapoviruses. J. Clin. Microbiol. 2013, 51:2344-2353.
25. Schrödinger L. Schrödinger Suite, Schrödinger 2015, LLC, New York, NY.
26. Smiley J.R., Chang K.O., Hayes J., Vinjé J., Saif L.J. Characterization of an enteropathogenic bovine calicivirus representing a potentially new calicivirus genus. J. Virol. 2002, 76:10089-10098.
27. Smith A.W., Skilling D.E., Cherry N., Mead J.H., Matson D.O. Calicivirus emergence from ocean reservoirs: zoonotic and interspecies movements. Emerg. Infect. Dis. 1998, 4:13-20.
28. Soma T., Nakagomi O., Nakagomi T., Mochizuki M. Detection of Norovirus and Sapovirus from diarrheic dogs and cats in Japan. Microbiol. Immunol. 2015, 59:123-128.
29. Teeling E.C., Springer M.S., Madsen O., Bates P., O'brien S.J., Murphy W.J. A molecular phylogeny for bats illuminates biogeography and the fossil record. Science 2005, 307:580-584.
30. Tse H., Chan W.M., Li K.S., Lau S.K., Woo P.C., Yuen K.Y. Discovery and genomic characterization of a novel bat sapovirus with unusual genomic features and phylogenetic position. PLoS One 2012, 4.
31. Wang Q., Scheuer K., Ahang Z., Gebreyes W.A., Molla B.Z., Hoet A.E., Saif L.J. Characterization and prevalence of a new porcine calicivirus in swine, United States. Emerg. Infect. Dis. 2011, 17:1103-1106.
32. Wang J., Moore N.E., Murray Z.L., McInnes K., White D.J., Tompkins D.M., Hall R.J. Discovery of novel virus sequences in an isolated and threatened bat species, the New Zealand lesser short-tailed bat (Mystacina tuberculata). J. Gen. Virol. 2015, 96:2442-2452.
33. Wolf S., Reetz J., Otto P. Genetic characterization of a novel calicivirus from a chicken. Arch. Virol. 2011, 156:1143-1150.
34. Wynne J.W., Wang L.F. Bats and viruses: friend or foe?. PLoS Pathog. 2013, 10.
35. Zhang Y. I-TASSER server for protein 3D structure prediction. BMC Bioinformatics 2008, 9:40.