1887

Abstract

Human bocavirus (HBoV) exsits in four genotypes: 1 to 4, with HBoV-1 being the most prevalent genotype. The aim of the current study was to genetically analyze the full-length genome of the HBoV-1 of recently detected Egyptian strains.

Seven overlapping sets of primers were developed to amplify an almost complete HBoV-1 genome from the clinical samples. The primer sets were tested on three recently identified Egyptian HBoV-1 strains with viral loads ≥10 ml. Sequencing was conducted using the same sets of primers. HBoV-1 virus strains were genetically analyzed based on the sequences of their complete genomes and the individual ORFs.

The new sets of primers successfully amplified the three tested strains. Sequence analysis of the full-length genome of the HBoV-1 revealed a considerable level of genetic heterogenicity between different strains. Based on the full genome and VP1 ORF, HBoV-1 viruses were clustered into three main lineages, A to C, and lineage A was further subdivided into three sublineages, A1–A3. The Egyptian strains were clustered within two sublineages, A1 and A2. New amino acid substitutions were detected in NS1 and VP1/VP2 proteins. Both inter- and intragenomic recombination events were detected among the Egyptian strains.

The existence of both intragenomic recombination event and multiple amino acid substitutions in the examined Egyptian HBoV-1 strains elucidates considerable level of genetic alterations among bocaviruses. Their possible effects on the virus virulence and multiplication efficiency need to be investigated.

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2017-02-01
2024-03-29
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References

  1. Cotmore SF, Agbandje-Mckenna M, Chiorini JA, Mukha DV, Pintel DJ et al. The family Parvoviridae. Arch Virol 2014; 159:1239–1247 [View Article][PubMed]
    [Google Scholar]
  2. Berns K, Parrish CR. Parvoviridae In Knipe DM, Howley PM. (editors) Fields Virology Philadelphia, PA: Wolkers Kluwer/Lippincott Williams and Wilkins; 2007 pp. 2437–2477
    [Google Scholar]
  3. Shen W, Deng X, Zou W, Cheng F, Engelhardt JF et al. Identification and functional analysis of novel nonstructural proteins of human bocavirus 1. J Virol 2015; 89:10097–10109 [View Article][PubMed]
    [Google Scholar]
  4. Huang Q, Deng X, Yan Z, Cheng F, Luo Y et al. Establishment of a reverse genetics system for studying human bocavirus in human airway epithelia. PLoS Pathog 2012; 8:e1002899 [View Article][PubMed]
    [Google Scholar]
  5. Chen AY, Cheng F, Lou S, Luo Y, Liu Z et al. Characterization of the gene expression profile of human bocavirus. Virology 2010; 403:145–154 [View Article][PubMed]
    [Google Scholar]
  6. Lüsebrink J, Wittleben F, Schildgen V, Schildgen O. Human bocavirus–insights into a newly identified respiratory virus. Viruses 2009; 1:3–12 [View Article][PubMed]
    [Google Scholar]
  7. Deng ZH, Hao YX, Yao LH, Xie ZP, Gao HC et al. Immunogenicity of recombinant human bocavirus-1,2 VP2 gene virus-like particles in mice. Immunology 2014; 142:58–66 [View Article][PubMed]
    [Google Scholar]
  8. Zou W, Cheng F, Shen W, Engelhardt JF, Yan Z et al. Nonstructural protein NP1 of human bocavirus 1 plays a critical role in the expression of viral capsid proteins. J Virol 2016; 90:4658–4669 [View Article][PubMed]
    [Google Scholar]
  9. Tewary SK, Zhao H, Shen W, Qiu J, Tang L. Structure of the NS1 protein N-terminal origin recognition/nickase domain from the emerging human bocavirus. J Virol 2013; 87:11487–11493 [View Article][PubMed]
    [Google Scholar]
  10. Cotmore SF, Tattersall P. A rolling-hairpin strategy: basic mechanisms of DNA replication in the parvoviruses. In Kerr J, Cotmore SF, Bloom ME, Parrish CR, Linden RM et al. (editors) Parvoviruses London: Hoddler Arnold; 2005 pp. 171–181 [CrossRef]
    [Google Scholar]
  11. Legendre D, Rommelaere J. Targeting of promoters for trans activation by a carboxy-terminal domain of the NS-1 protein of the parvovirus minute virus of mice. J Virol 1994; 68:7974–7985[PubMed]
    [Google Scholar]
  12. Sun B, Cai Y, Li Y, Li J, Liu K et al. The nonstructural protein NP1 of human bocavirus 1 induces cell cycle arrest and apoptosis in hela cells. Virology 2013; 440:75–83 [View Article][PubMed]
    [Google Scholar]
  13. Zhang Z, Zheng Z, Luo H, Meng J, Li H et al. Human bocavirus NP1 inhibits IFN-β production by blocking association of IFN regulatory factor 3 with IFNB promoter. J Immunol 2012; 189:1144–1153 [View Article][PubMed]
    [Google Scholar]
  14. Allander T, Tammi MT, Eriksson M, Bjerkner A, Tiveljung-Lindell A et al. Cloning of a human parvovirus by molecular screening of respiratory tract samples. Proc Natl Acad Sci USA 2005; 102:12891–12896 [View Article][PubMed]
    [Google Scholar]
  15. Arthur JL, Higgins GD, Davidson GP, Givney RC, Ratcliff RM. A novel bocavirus associated with acute gastroenteritis in Australian children. PLoS Pathog 2009; 5:e1000391 [View Article][PubMed]
    [Google Scholar]
  16. Kapoor A, Slikas E, Simmonds P, Chieochansin T, Naeem A et al. A newly identified bocavirus species in human stool. J Infect Dis 2009; 199:196–200 [View Article][PubMed]
    [Google Scholar]
  17. Abdel-Moneim AS, Kamel MM, Hamed DH, Hassan SS, Soliman MS et al. A novel primer set for improved direct gene sequencing of human bocavirus genotype-1 from clinical samples. J Virol Methods 2016; 228:108–113 [View Article][PubMed]
    [Google Scholar]
  18. Abdel-Moneim AS, Kamel MM, Al-Ghamdi AS, Al-Malky MI. Detection of bocavirus in children suffering from acute respiratory tract infections in Saudi Arabia. PLoS One 2013; 8:e55500 [View Article][PubMed]
    [Google Scholar]
  19. Meriluoto M, Hedman L, Tanner L, Simell V, Mäkinen M et al. Association of human bocavirus 1 infection with respiratory disease in childhood follow-up study, Finland. Emerg Infect Dis 2012; 18:264–271 [View Article][PubMed]
    [Google Scholar]
  20. Romani S, Mohebbi SR, Khanyaghma M, Azimzadeh P, Bozorgi SM et al. Detection of human Bocavirus 1, 2 and 3 from patients with acute gastroenteritis. Gastroenterol Hepatol Bed Bench 2013; 6:S77–S81[PubMed]
    [Google Scholar]
  21. Mitui MT, Tabib SM, Matsumoto T, Khanam W, Ahmed S et al. Detection of human bocavirus in the cerebrospinal fluid of children with encephalitis. Clin Infect Dis 2012; 54:964–967 [View Article][PubMed]
    [Google Scholar]
  22. Schildgen V, Malecki M, Tillmann RL, Brockmann M, Schildgen O. The human bocavirus is associated with some lung and colorectal cancers and persists in solid tumors. PLoS One 2013; 8:e68020 [View Article][PubMed]
    [Google Scholar]
  23. Abdel-Moneim AS, El-Fol HA, Kamel MM, Soliman AS, Mahdi EA et al. Screening of human bocavirus in surgically excised cancer specimens. Arch Virol 2016; 161:2095–2102 [View Article][PubMed]
    [Google Scholar]
  24. Khamrin P, Okitsu S, Ushijima H, Maneekarn N. Complete genome sequence analysis of novel human bocavirus reveals genetic recombination between human bocavirus 2 and Human bocavirus 4. Infect Genet Evol 2013; 17:132–136 [View Article][PubMed]
    [Google Scholar]
  25. Babkin IV, Tyumentsev AI, Tikunov AY, Kurilshikov AM, Ryabchikova EI et al. Evolutionary time-scale of primate bocaviruses. Infect Genet Evol 2013; 14:265–274 [View Article][PubMed]
    [Google Scholar]
  26. Kapoor A, Simmonds P, Slikas E, Li L, Bodhidatta L et al. Human bocaviruses are highly diverse, dispersed, recombination prone, and prevalent in enteric infections. J Infect Dis 2010; 201:1633–1643 [View Article][PubMed]
    [Google Scholar]
  27. Chieochansin T, Simmonds P, Poovorawan Y. Determination and analysis of complete coding sequence regions of new discovered human bocavirus types 2 and 3. Arch Virol 2010; 155:2023–2028 [View Article][PubMed]
    [Google Scholar]
  28. Fu X, Wang X, Ni B, Shen H, Wang H et al. Recombination analysis based on the complete genome of bocavirus. Virol J 2011; 8:182 [View Article][PubMed]
    [Google Scholar]
  29. Cashman O, O'Shea H. Detection of human bocaviruses 1, 2 and 3 in Irish children presenting with gastroenteritis. Arch Virol 2012; 157:1767–1773 [View Article][PubMed]
    [Google Scholar]
  30. Tamura K, Peterson D, Peterson N, Stecher G, Nei M et al. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 2011; 28:2731–2739 [View Article][PubMed]
    [Google Scholar]
  31. Tamura K, Nei M. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol Biol Evol 1993; 10:512–526[PubMed]
    [Google Scholar]
  32. Martin DP, Lemey P, Lott M, Moulton V, Posada D et al. RDP3: a flexible and fast computer program for analyzing recombination. Bioinformatics 2010; 26:2462–2463 [View Article][PubMed]
    [Google Scholar]
  33. Chieochansin T, Chutinimitkul S, Payungporn S, Hiranras T, Samransamruajkit R et al. Complete coding sequences and phylogenetic analysis of Human Bocavirus (HBoV). Virus Res 2007; 129:54–57 [View Article]
    [Google Scholar]
  34. Pogka V, Moutousi A, Kossyvakis A, Kalliaropoulos A, Sgouras DN et al. Genetic variability of human metapneumo- and bocaviruses in children with respiratory tract infections. Influenza Other Respir Viruses 2014; 8:107–115 [View Article][PubMed]
    [Google Scholar]
  35. Lin JH, Chiu SC, Lin YC, Chen HL, Lin KH et al. Clinical and genetic analysis of Human bocavirus in children with lower respiratory tract infection in Taiwan. J Clin Virol 2009; 44:219–224 [View Article][PubMed]
    [Google Scholar]
  36. Hao R, Ni K, Xia Q, Peng C, Deng Y et al. Correlation between nucleotide mutation and viral loads of human bocavirus 1 in hospitalized children with respiratory tract infection. J Gen Virol 2013; 94:1079–1085 [View Article][PubMed]
    [Google Scholar]
  37. Qu XW, Liu WP, Qi ZY, Duan ZJ, Zheng LS et al. Phospholipase A2-like activity of human bocavirus VP1 unique region. Biochem Biophys Res Commun 2008; 365:158–163 [View Article][PubMed]
    [Google Scholar]
  38. Zádori Z, Szelei J, Lacoste MC, Li Y, Gariépy S et al. A viral phospholipase A2 is required for parvovirus infectivity. Dev Cell 2001; 1:291–302 [View Article][PubMed]
    [Google Scholar]
  39. Kailasan S, Garrison J, Ilyas M, Chipman P, Mckenna R et al. Mapping antigenic epitopes on the human Bocavirus capsid. J Virol 2016; 90:4670–4680 [View Article]
    [Google Scholar]
  40. Ahmed SF, Mansour A, Wasfy MA, Haddad A, Kamel M et al. Detection of human bocavirus types 1 and 3 in Egyptian children with acute gastroenteritis; 2015 International Conference on Emerging Infectious Diseases 2015 poster and oral presentation abstracts; 24–26 August 2015 pp. 6–7 https://wwwnc.cdc.gov/eid/article/21/9/pdfs/nn-2109.pdf
  41. Xu L, He X, Zhang DM, Feng FS, Wang Z et al. Surveillance and genome analysis of human bocavirus in patients with respiratory infection in Guangzhou, China. PLoS One 2012; 7:e44876 [View Article][PubMed]
    [Google Scholar]
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