Phylogenetic patterns of human respiratory picornavirus species, including the newly identified group C rhinoviruses, during a 1-year surveillance of a hospitalized patient population in Italy

Journal of Clinical Microbiology

Volumn 49, Issue 1, 2011, Pages 373-376

  Piralla, Antonio ^a   Baldanti, Fausto ^a   Gerna, Giuseppe ^a  

^a FONDAZIONE IRCCS POLICLINICO SAN MATTEO   (Italy)

Author keywords

[No Author keywords available]

Indexed keywords

PROTEIN VP2; PROTEIN VP4;

ACUTE RESPIRATORY TRACT DISEASE; ARTICLE; DISEASE SURVEILLANCE; HOSPITAL PATIENT; HUMAN; HUMAN RHINOVIRUS; ITALY; MAJOR CLINICAL STUDY; MOLECULAR TYPING; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; PROMOTER REGION; SEQUENCE ANALYSIS; VIRUS DETECTION; VIRUS IDENTIFICATION;

HUMANS; ITALY; MOLECULAR SEQUENCE DATA; MOLECULAR TYPING; PICORNAVIRIDAE; PICORNAVIRIDAE INFECTIONS; PREVALENCE; RESPIRATORY TRACT INFECTIONS; RNA, VIRAL; SEQUENCE ANALYSIS, DNA;

HUMAN RHINOVIRUS SP.; PICORNAVIRIDAE; RHINOVIRUS;

EID: 78650921598     PISSN: 00951137     EISSN: 1098660X     Source Type: Journal    
DOI: 10.1128/JCM.01814-10     Document Type: Article

References (23)

1. Arden, K. E., C. E. Faux, N. T. O'Neill, P. McErlean, A. Nitsche, S. B. Lambert, M. D. Nissen, T. P. Sloots, and I. M. Mackay. 2010. Molecular characterization and distinguishing features of a novel human rhinovirus (HRV) C, HRVC-QCE, detected in children with fever, cough and wheeze during 2003. J. Clin. Virol. 47:219-223.
2. Cordey, S., D. Gerlach, T. Junier, E. M. Zdobnov, L. Kaiser, and C. Tapparel. 2008. The cis-acting replication elements define human enterovirus and rhinovirus species. RNA 14:1568-1578.
3. Khetsuriani, N., X. Lu, W. G. Teague, N. Kazerouni, L. J. Anderson, and D. D. Erdman. 2008. Novel human rhinoviruses and exacerbation of asthma in children. Emerg. Infect. Dis. 14:1793-1796.
4. Kiang, D., I. Kalra, S. Yagi, J. K. Louie, H. Boushey, J. Boothby, and D. P. Schnurr. 2008. Assay for 5′ noncoding region analysis of all human rhinovirus prototype strains. J. Clin. Microbiol. 46:3736-3745.
5. Lamson, D., N. Renwick, V. Kapoor, Z. Liu, G. Palacios, J. Ju, A. Dean, K. St George, T. Briese, and W. I. Lipkin. 2006. Mass Tag polymerase-chain- reaction detection of respiratory pathogens, including a new rhinovirus genotype, that caused influenza-like illness in New York State during 2004-2005. J. Infect. Dis. 194:1398-1402.
6. Lau, S. K., C. C. Yip, A. W. Lin, R. A. Lee, L. Y. So, Y. L. Lau, K. H. Chan, P. C. Woo, and K. Y. Yuen. 2009. Clinical and molecular epidemiology of human rhinovirus C in children and adults in Hong Kong reveals a possible distinct human rhinovirus C subgroup. J. Infect. Dis. 200:1096-1103.
7. Lau, S. K., C. C. Yip, H. W. Tsoi, R. A. Lee, L. Y. So, Y. L. Lau, K. H. Chan, P. C. Woo, and K. Y. Yuen. 2007. Clinical features and complete genome characterization of a distinct human rhinovirus (HRV) genetic cluster, probably representing a previously undetected HRV species, HRV-C, associated with acute respiratory illness in children. J. Clin. Microbiol. 45:3655-3664.
8. Linsuwanon, P., S. Payungporn, R. Samransamruajkit, N. Posuwan, J. Makkoch, A. Theanboonlers, and Y. Poovorawan. 2009. High prevalence of human rhinovirus C infection in Thai children with acute lower respiratory tract disease. J. Infect. 59:115-121.
9. Lu, X., B. Holloway, R. K. Dare, J. Kuypers, S. Yagi, J. V. Williams, C. B. Hall, and D. D. Erdman. 2008. Real-time RT-PCR assay for comprehensive detection of human rhinoviruses. J. Clin. Microbiol. 46:533-539.
10. McErlean, P., L. A. Shackelton, E. Andrews, D. R. Webster, S. B. Lambert, M. D. Nissen, T. P. Sloots, and I. M. Mackay. 2008. Distinguishing molecular features and clinical characteristics of a putative new rhinovirus species, human rhinovirus C (HRV C). PLoS One 3:e1847.
11. Miller, E. K., K. M. Edwards, G. A. Weinberg, M. K. Iwane, M. R. Griffin, C. B. Hall, Y. Zhu, P. G. Szilagyi, L. L. Morin, L. H. Heil, X. Lu, and J. V. Williams, New Vaccine Surveillance Network. 2009. A novel group of rhinoviruses is associated with asthma hospitalizations. J. Allergy Clin. Immunol. 123:98-104.
12. Nix, W. A., M. S. Oberste, and M. A. Pallansch. 2006. Sensitive, seminested PCR amplification of VP1 sequences for direct identification of all enterovirus serotypes from original clinical specimens. J. Clin. Microbiol. 44:2698-2704.
13. Piralla, A., F. Rovida, G. Campanini, V. Rognoni, A. Marchi, F. Locatelli, and G. Gerna. 2009. Clinical severity and molecular typing of human rhinovirus C strains during a fall outbreak affecting hospitalized patients. J. Clin. Virol. 45:311-317.
14. Rovida, F., E. Percivalle, M. Zavattoni, M. Torsellini, A. Sarasini, G. Campanini, S. Paolucci, F. Baldanti, M. G. Revello, and G. Gerna. 2005. Monoclonal antibodies versus reverse transcription-PCR for detection of respiratory viruses in a patient population with respiratory tract infections admitted to hospital. J. Med. Virol. 75:336-347.
15. Santti, J., T. Hyypia, L. Kinnunen, and M. Salminen. 1999. Evidence of recombination among enteroviruses. J. Virol. 73:8741-8749.
16. Sarasini, A., E. Percivalle, F. Rovida, G. Campanini, E. Genini, M. Torsellini, S. Paolucci, F. Baldanti, A. Marchi, M. G. Revello, and G. Gerna. 2006. Detection and pathogenicity of human metapneumovirus respiratory infection in pediatric Italian patients during a winter-spring season. J. Clin. Virol. 35:59-68.
17. Savolainen, C., S. Blomqvist, M. N. Mulders, and T. Hovi. 2002. Genetic clustering of all 102 human rhinovirus prototype strains: serotype 87 is close to human enterovirus 70. J. Gen. Virol. 83:333-340.
18. Savolainen-Kopra, C., S. Blomqvist, T. Kilpi, M. Roivainen, and T. Hovi. 2009. Novel species of human rhinoviruses in acute otitis media. Pediatr. Infect. Dis. J. 28:59-61.
19. Simmonds, P., C. L. McIntyre, C. Savolainen-Kopra, C. Tapparel, I. M. Mackay, and T. Hovi. 21 July 2010, posting date. Proposals for the classification of human rhinovirus species C into genotypically-assigned types. J. Gen. Virol. doi:10.1099/vir.0.023994-0.
20. Tamura, K., J. Dudley, M. Nei, and S. Kumar. 2007. MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol. Biol. Evol. 24:1596-1599.
21. Van Doornum, G. J., M. Schutten, J. Voermans, G. J. J. Guldemeester, and H. G. M. Niesters. 2007. Development and implementation of real-time nucleic acid amplification for the detection of enterovirus infections in comparison to rapid culture of various clinical specimens. J. Med. Virol. 79:1868-1876.
22. Wisdom, A., A. E. Kutkowska, E. C. McWilliam Leitch, E. Gaunt, K. Templeton, H. Harvala, and P. Simmonds. 2009. Genetics, recombination and clinical features of human rhinovirus species C (HRV-C) infections; interactions of HRV-C with other respiratory viruses. PLoS One 4:e8518.
23. Wisdom, A., E. C. McWilliam Leitch, E. Gaunt, H. Harvala, and P. Simmonds. 2009. Screening respiratory samples for detection of human rhinoviruses (HRVs) and enteroviruses: comprehensive VP4-VP2 typing reveals high incidence and genetic diversity of HRV species C. J. Clin. Microbiol. 47:3958-3967.