1887

Abstract

The coding sequences of five human enterovirus (HEV)-C genotype 105 strains recovered in Italy, Romania and Burundi from patients with upper and lower respiratory tract infections were analysed and phylogenetically compared with other circulating HEV-C strains. The EV-C105 was closely related to EV-C109 and EV-C118 strains. The European strains were similar to other circulating EV-C105 strains, while the two African EV-C105 clustered in separate bootstrap-supported (>0.90) branches of the P2 and P3 region trees. Minor inconsistencies in the clustering pattern of EV-C105 in the capsid region (P1) and non-capsid region (P3) suggest that recombination may have occurred in EV-C105 group B viruses. In conclusion, phylogenetic analysis revealed the circulation of two distinct EV-C105 lineages in Europe and Africa. A different pattern of evolution could be hypothesized for the two EV-C105 lineages.

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2015-06-01
2019-11-12
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References

  1. Bailly J. L., Mirand A., Henquell C., Archimbaud C., Chambon M., Regagnon C., Charbonné F., Peigue-Lafeuille H.. ( 2011; ). Repeated genomic transfers from echovirus 30 to echovirus 6 lineages indicate co-divergence between co-circulating populations of the two human enterovirus serotypes. . Infect Genet Evol 11:, 276–289. [CrossRef] [PubMed]
    [Google Scholar]
  2. Bazan J. F., Fletterick R. J.. ( 1988; ). Viral cysteine proteases are homologous to the trypsin-like family of serine proteases: structural and functional implications. . Proc Natl Acad Sci U S A 85:, 7872–7876. [CrossRef] [PubMed]
    [Google Scholar]
  3. Brown B., Oberste M. S., Maher K., Pallansch M. A.. ( 2003; ). Complete genomic sequencing shows that polioviruses and members of human enterovirus species C are closely related in the noncapsid coding region. . J Virol 77:, 8973–8984. [CrossRef] [PubMed]
    [Google Scholar]
  4. Daleno C., Piralla A., Scala A., Baldanti F., Usonis V., Principi N., Esposito S.. ( 2012; ). Complete genome sequence of a novel human enterovirus C (HEV-C117) identified in a child with community-acquired pneumonia. . J Virol 86:, 10888–10889. [CrossRef] [PubMed]
    [Google Scholar]
  5. Daleno C., Greenberg D., Piralla A., Scala A., Baldanti F., Principi N., Esposito S.. ( 2013; ). A novel human enterovirus C (EV-C118) identified in two children hospitalised because of acute otitis media and community-acquired pneumonia in Israel. . J Clin Virol 56:, 159–162. [CrossRef] [PubMed]
    [Google Scholar]
  6. Esposito S., Daleno C., Baggi E., Ciarmoli E., Lavizzari A., Pierro M., Semino M., Groppo M., Scala A. et al. ( 2012; ). Circulation of different rhinovirus groups among children with lower respiratory tract infection in Kiremba, Burundi. . Eur J Clin Microbiol Infect Dis 31:, 3251–3256. [CrossRef] [PubMed]
    [Google Scholar]
  7. Gorbalenya A. E., Donchenko A. P., Blinov V. M., Koonin E. V.. ( 1989; ). Cysteine proteases of positive strand RNA viruses and chymotrypsin-like serine proteases. A distinct protein superfamily with a common structural fold. . FEBS Lett 243:, 103–114. [CrossRef] [PubMed]
    [Google Scholar]
  8. Guindon S., Gascuel O.. ( 2003; ). A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. . Syst Biol 52:, 696–704. [CrossRef] [PubMed]
    [Google Scholar]
  9. Harvala H., Sharp C. P., Ngole E. M., Delaporte E., Peeters M., Simmonds P.. ( 2011; ). Detection and genetic characterization of enteroviruses circulating among wild populations of chimpanzees in Cameroon: relationship with human and simian enteroviruses. . J Virol 85:, 4480–4486. [CrossRef] [PubMed]
    [Google Scholar]
  10. Jacobson L. M., Redd J. T., Schneider E., Lu X., Chern S. W., Oberste M. S., Erdman D. D., Fischer G. E., Armstrong G. L. et al. ( 2012; ). Outbreak of lower respiratory tract illness associated with human enterovirus 68 among American Indian children. . Pediatr Infect Dis J 31:, 309–312. [CrossRef] [PubMed]
    [Google Scholar]
  11. Lindberg A. M., Andersson P., Savolainen C., Mulders M. N., Hovi T.. ( 2003; ). Evolution of the genome of Human enterovirus B: incongruence between phylogenies of the VP1 and 3CD regions indicates frequent recombination within the species. . J Gen Virol 84:, 1223–1235. [CrossRef] [PubMed]
    [Google Scholar]
  12. Lole K. S., Bollinger R. C., Paranjape R. S., Gadkari D., Kulkarni S. S., Novak N. G., Ingersoll R., Sheppard H. W., Ray S. C.. ( 1999; ). Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination. . J Virol 73:, 152–160.[PubMed]
    [Google Scholar]
  13. Lukashev A. N., Drexler J. F., Kotova V. O., Amjaga E. N., Reznik V. I., Gmyl A. P., Grard G., Taty Taty R., Trotsenko O. E. et al. ( 2012; ). Novel serotypes 105 and 116 are members of distinct subgroups of human enterovirus C. . J Gen Virol 93:, 2357–2362. [CrossRef] [PubMed]
    [Google Scholar]
  14. Lukashev A. N., Shumilina E. Y., Belalov I. S., Ivanova O. E., Eremeeva T. P., Reznik V. I., Trotsenko O. E., Drexler J. F., Drosten C.. ( 2014; ). Recombination strategies and evolutionary dynamics of the Human enterovirus A global gene pool. . J Gen Virol 95:, 868–873. [CrossRef] [PubMed]
    [Google Scholar]
  15. McWilliam Leitch E. C., Cabrerizo M., Cardosa J., Harvala H., Ivanova O. E., Koike S., Kroes A. C., Lukashev A., Perera D. et al. ( 2012; ). The association of recombination events in the founding and emergence of subgenogroup evolutionary lineages of human enterovirus 71. . J Virol 86:, 2676–2685. [CrossRef] [PubMed]
    [Google Scholar]
  16. Oberste M. S., Maher K., Kilpatrick D. R., Flemister M. R., Brown B. A., Pallansch M. A.. ( 1999; ). Typing of human enteroviruses by partial sequencing of VP1. . J Clin Microbiol 37:, 1288–1293.[PubMed]
    [Google Scholar]
  17. Oberste M. S., Peñaranda S., Maher K., Pallansch M. A.. ( 2004; ). Complete genome sequences of all members of the species Human enterovirus A. . J Gen Virol 85:, 1597–1607. [CrossRef] [PubMed]
    [Google Scholar]
  18. Palacios G., Casas I., Cisterna D., Trallero G., Tenorio A., Freire C.. ( 2002; ). Molecular epidemiology of echovirus 30: temporal circulation and prevalence of single lineages. . J Virol 76:, 4940–4949. [CrossRef] [PubMed]
    [Google Scholar]
  19. Pfister T., Jones K. W., Wimmer E.. ( 2000; ). A cysteine-rich motif in poliovirus protein 2C(ATPase) is involved in RNA replication and binds zinc in vitro. . J Virol 74:, 334–343. [CrossRef] [PubMed]
    [Google Scholar]
  20. Piralla A., Rovida F., Baldanti F., Gerna G.. ( 2010; ). Enterovirus genotype EV-104 in humans, Italy, 2008-2009. . Emerg Infect Dis 16:, 1018–1021. [CrossRef] [PubMed]
    [Google Scholar]
  21. Piralla A., Lilleri D., Sarasini A., Marchi A., Zecca M., Stronati M., Baldanti F., Gerna G.. ( 2012; ). Human rhinovirus and human respiratory enterovirus (EV68 and EV104) infections in hospitalized patients in Italy, 2008-2009. . Diagn Microbiol Infect Dis 73:, 162–167. [CrossRef] [PubMed]
    [Google Scholar]
  22. Piralla A., Fiorina L., Daleno C., Esposito S., Baldanti F.. ( 2013; ). Complete genome characterization of enterovirus 104 circulating in Northern Italy shows recombinant origin of the P3 region. . Infect Genet Evol 20:, 111–117. [CrossRef] [PubMed]
    [Google Scholar]
  23. Richter J., Tryfonos C., Panagiotou C., Nikolaou E., Koliou M., Christodoulou C.. ( 2013; ). Newly emerging C group enteroviruses may elude diagnosis due to a divergent 5′-UTR. . Int J Infect Dis 17:, e1245–e1248. [CrossRef] [PubMed]
    [Google Scholar]
  24. Simmonds P.. ( 2012; ). SSE: a nucleotide and amino acid sequence analysis platform. . BMC Res Notes 5:, 50. [CrossRef] [PubMed]
    [Google Scholar]
  25. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S.. ( 2011; ). MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. . Mol Biol Evol 28:, 2731–2739. [CrossRef] [PubMed]
    [Google Scholar]
  26. Tapparel C., Junier T., Gerlach D., Van-Belle S., Turin L., Cordey S., Mühlemann K., Regamey N., Aubert J. D. et al. ( 2009; ). New respiratory enterovirus and recombinant rhinoviruses among circulating picornaviruses. . Emerg Infect Dis 15:, 719–726. [CrossRef] [PubMed]
    [Google Scholar]
  27. Tokarz R., Haq S., Sameroff S., Howie S. R., Lipkin W. I.. ( 2013; a). Genomic analysis of coxsackieviruses A1, A19, A22, enteroviruses 113 and 104: viruses representing two clades with distinct tropism within enterovirus C. . J Gen Virol 94:, 1995–2004. [CrossRef] [PubMed]
    [Google Scholar]
  28. Tokarz R., Hirschberg D. L., Sameroff S., Haq S., Luna G., Bennett A. J., Silva M., Leguia M., Kasper M. et al. ( 2013; b). Genomic analysis of two novel human enterovirus C genotypes found in respiratory samples from Peru. . J Gen Virol 94:, 120–127. [CrossRef] [PubMed]
    [Google Scholar]
  29. Xiang Z., Gonzalez R., Wang Z., Ren L., Xiao Y., Li J., Li Y., Vernet G., Paranhos-Baccalà G. et al. ( 2012; ). Coxsackievirus A21, enterovirus 68, and acute respiratory tract infection, China. . Emerg Infect Dis 18:, 821–824. [CrossRef] [PubMed]
    [Google Scholar]
  30. Yozwiak N. L., Skewes-Cox P., Gordon A., Saborio S., Kuan G., Balmaseda A., Ganem D., Harris E., DeRisi J. L.. ( 2010; ). Human enterovirus 109: a novel interspecies recombinant enterovirus isolated from a case of acute pediatric respiratory illness in Nicaragua. . J Virol 84:, 9047–9058. [CrossRef] [PubMed]
    [Google Scholar]
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