Human rhinoviruses in INDIS-study material-evidence for recovery of viable rhinovirus from fecal specimens

Journal of Medical Virology

Volumn 85, Issue 8, 2013, Pages 1466-1472

  Savolainen Kopra, Carita ^a   Simonen Tikka, Marja Leena ^a   Klemola, Päivi ^a   Blomqvist, Soile ^a   Suomenrinne, Sointu ^b   Näntö Salonen, Kirsti ^b   Simell, Olli ^b   Roivainen, Merja ^a  

^a NATIONAL PUBLIC HEALTH INSTITUTE   (Finland)

^b UNIVERSITY OF TURKU   (Finland)

Author keywords

Cell culture; Rhinovirus; Stool sample

Indexed keywords

ANTICIPATION; ARTICLE; CELL CULTURE; CHILD; CYTOPATHOGENIC EFFECT; GENETIC CODE; HUMAN; HUMAN RHINOVIRUS; MAJOR CLINICAL STUDY; NUCLEOTIDE SEQUENCE; PROSPECTIVE STUDY; REAL TIME POLYMERASE CHAIN REACTION; SCHOOL CHILD; VIRUS DETECTION;

CHILD; CHILD, PRESCHOOL; FECES; FEMALE; GENOTYPE; HUMANS; INFANT; INFANT, NEWBORN; MALE; MOLECULAR SEQUENCE DATA; NASOPHARYNX; PICORNAVIRIDAE INFECTIONS; PREVALENCE; PROSPECTIVE STUDIES; REAL-TIME POLYMERASE CHAIN REACTION; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RHINOVIRUS; RNA, VIRAL; SEQUENCE ANALYSIS, DNA;

HUMAN RHINOVIRUS SP.; RHINOVIRUS;

EID: 84879181469     PISSN: 01466615     EISSN: 10969071     Source Type: Journal    
DOI: 10.1002/jmv.23593     Document Type: Article

References (43)

1. Abzug MJ, Beam AC, Gyorkos EA, Levin MJ. 1990. Viral pneumonia in the first month of life. Pediatr Infect Dis J 9:881-885.
2. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. 1990. Basic local alignment search tool. J Mol Biol 215:403-410.
3. Arden KE, Mackay IM. 2009. Human rhinoviruses: Coming in from the cold. Genome Med 1:44.
4. Arden KE, Mackay IM. 2010. Newly identified human rhinoviruses: Molecular methods heat up the cold viruses. Rev Med Virol 20:156-176.
5. Arden KE, McErlean P, Nissen MD, Sloots TP, Mackay IM. 2006. Frequent detection of human rhinoviruses, paramyxoviruses, coronaviruses, and bocavirus during acute respiratory tract infections. J Med Virol 78:1232-1240.
6. Arola M, Ziegler T, Ruuskanen O, Mertsola J, Nanto-Salonen K, Halonen P. 1988. Rhinovirus in acute otitis media. J Pediatr 113:693-695.
7. Arruda E, Pitkaranta A, Witek TJ, Jr., Doyle CA, Hayden FG. 1997. Frequency and natural history of rhinovirus infections in adults during autumn. J Clin Microbiol 35:2864-2868.
8. Blomqvist S, Savolainen-Kopra C, Paananen A, Hovi T, Roivainen M. 2009. Molecular characterization of human rhinovirus field strains isolated during surveillance of enteroviruses. J Gen Virol 90:1371-1381.
9. Broberg E, Niemela J, Lahti E, Hyypia T, Ruuskanen O, Waris M. 2011. Human rhinovirus C-Associated severe pneumonia in a neonate. J Clin Virol 51:79-82.
10. De W, Changwen K, Wei L, Monagin C, Jin Y, Cong M, Hanri Z, Jun S. 2011. A large outbreak of hand, foot, and mouth disease caused by EV71 and CAV16 in Guangdong, China, 2009. Arch Virol 156:945-953.
11. Drummond AJ, Ashton B, Buxton S, Cheung M, Cooper A, Duran C, Field M, Heled J, Kearse M, Markowitz S, Moir R, Stones-Havas S, Sturrock S, Thierer T, WIlson A. 2012. Geneious v5.6. http://www.geneious.com.
12. Faux CE, Arden KE, Lambert SB, Nissen MD, Nolan TM, Chang AB, Sloots TP, Mackay IM. 2011. Usefulness of published PCR primers in detecting human rhinovirus infection. Emerg Infect Dis 17:296-298.
13. Harvala H, McIntyre CL, McLeish NJ, Kondracka J, Palmer J, Molyneaux P, Gunson R, Bennett S, Templeton K, Simmonds P. 2012. High detection frequency and viral loads of human rhinovirus species A to C in fecal samples; diagnostic and clinical implications. J Med Virol 84:536-542.
14. Hillis DM, Bull JJ. 1993. An empirical test of bootstrapping as a method for assessing confidence in phylogenetic analysis. Syst Biol 42:182-192.
15. Honkanen H, Oikarinen S, Peltonen P, Simell O, Ilonen J, Veijola R, Knip M, Hyoty H. 2012. Human rhinoviruses including group C are common in stool samples of young finnish children. J Clin Virol 56:334-338.
16. Jartti T, Lehtinen P, Vuorinen T, Osterback R, van den Hoogen B, Osterhaus AD, Ruuskanen O. 2004. Respiratory picornaviruses and respiratory syncytial virus as causative agents of acute expiratory wheezing in children. Emerg Infect Dis 10:1095-1101.
17. Johnston SL, Pattemore PK, Sanderson G, Smith S, Lampe F, Josephs L, Symington P, O'Toole S, Myint SH, Tyrrell DA, 1995. Community study of role of viral infections in exacerbations of asthma in 9-11 years old children. BMJ 310:1225-1229.
18. Kilpatrick DR, Yang CF, Ching K, Vincent A, Iber J, Campagnoli R, Mandelbaum M, De L Yang SJ, Nix A, Kew OM. 2009. Rapid group-, serotype-, and vaccine strain-specific identification of poliovirus isolates by real-time reverse transcription-PCR using degenerate primers and probes containing deoxyinosine residues. J Clin Microbiol 47:1939-1941.
19. Kistler A, Avila PC, Rouskin S, Wang D, Ward T, Yagi S, Schnurr D, Ganem D, DeRisi JL, Boushey HA. 2007. Pan-viral screening of respiratory tract infections in adults with and without asthma reveals unexpected human coronavirus and human rhinovirus diversity. J Infect Dis 196:817-825.
20. Knowles NJ, Hovi T, Hyypia T, King AMQ, Lindberg M, Pallansch MA, Palmenberg AC, Simmonds P, Skern T, Stanway G, Yamashita T, Zell R. 2012. Picornaviridae. In: King AMQ, Adams, MJ, Carstens, EB, Lefkowitz, EJ, editors. Virus taxonomy: Classification and nomenclature of viruses: Ninth report of the International Committee on Taxonomy of Viruses. San Diego: Elsevier, pp 855-880.
21. Lamson D, Renwick N, Kapoor V, Liu Z, Palacios G, Ju J, Dean A, St George K, Briese T, Lipkin WI. 2006. MassTag 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.
22. Lau SK, Yip CC, Lung DC, Lee P, Que TL, Lau YL, Chan KH, Woo PC, Yuen KY. 2012. Detection of human rhinovirus C in fecal samples of children with gastroenteritis. J Clin Virol 53:290-296.
23. Lau SK, Yip CC, Tsoi HW, Lee RA, So LY, Lau YL, Chan KH, Woo PC, Yuen KY. 2007. Clinical features and complete genome characterization of a distinct human rhinovirus genetic cluster, probably representing a previously undetected HRV species, HRV-C, associated with acute respiratory illness in children. J Clin Microbiol 45:3655-3664.
24. Lee WM, Kiesner C, Pappas T, Lee I, Grindle K, Jartti T, Jakiela B, Lemanske RF, Shult PA, Gern JE. 2007. A diverse group of previously unrecognized human rhinoviruses are common causes of respiratory illnesses in infants. PLoS ONE 2:e966.
25. Lu X, Holloway B, Dare RK, Kuypers J, Yagi S, Williams JV, Hall CB, Erdman DD. 2008. Real-time reverse transcription-PCR assay for comprehensive detection of human rhinoviruses. J Clin Microbiol 46:533-539.
26. Mackay IM. 2008. Human rhinoviruses: The cold wars resume. J Clin Virol 42:297-320.
27. Makela MJ, Puhakka T, Ruuskanen O, Leinonen M, Saikku P, Kimpimaki M, Blomqvist S, Hyypia T, Arstila P. 1998. Viruses and bacteria in the etiology of the common cold. J Clin Microbiol 36:539-542.
28. McErlean P, Shackelton LA, Lambert SB, Nissen MD, Sloots TP, Mackay IM. 2007. Characterisation of a newly identified human rhinovirus, HRV-QPM, discovered in infants with bronchiolitis. J Clin Virol 39:67-75.
29. Mitchell DJ, McClure BG, Tubman TR. 2001. Simultaneous monitoring of gastric and esophageal pH reveals limitations of conventional esophageal pH monitoring in milk fed infants. Arch Dis Child 84:273-276.
30. Nokso-Koivisto J, Raty R, Blomqvist S, Kleemola M, Syrjanen R, Pitkaranta A, Kilpi T, Hovi T. 2004. Presence of specific viruses in the middle ear fluids and respiratory secretions of young children with acute otitis media. J Med Virol 72:241-248.
31. Oberste MS, Nix WA, Maher K, Pallansch MA. 2003. Improved molecular identification of enteroviruses by RT-PCR and amplicon sequencing. J Clin Virol 26:375-377.
32. Pitkaranta A, Arruda E, Malmberg H, Hayden FG. 1997. Detection of rhinovirus in sinus brushings of patients with acute community-acquired sinusitis by reverse transcription-PCR. J Clin Microbiol 35:1791-1793.
33. Renwick N, Schweiger, B, Kapoor, V, Zhiqiang, L, Villari, J, Bullman, R, Miething, R, Briese, T, Lipkin, IW. 2007. A recently identified rhinovirus genotype is associated with severe respiratory-tract infection in children in Germany. J Infect Dis 196:1754-1760.
34. Ruohola A, Waris M, Allander T, Ziegler T, Heikkinen T, Ruuskanen O. 2009. Viral etiology of common cold in children, Finland. Emerg Infect Dis 15:344-346.
35. Savolainen-Kopra C, Blomqvist S, Kaijalainen S, Jounio U, Juvonen R, Peitso A, Saukkoriipi A, Vainio O, Hovi T, Roivainen M. 2010. All known human rhinovirus species are present in sputum specimens of military recruits during respiratory infection. Viruses 1:1178-1189.
36. Savolainen-Kopra C, Blomqvist S, Kilpi T, Roivainen M, Hovi T. 2009. Novel species of human rhinoviruses in acute otitis media. Pediatr Infect Dis J 28:59-61.
37. Schnepf N, Resche-Rigon M, Chaillon A, Scemla A, Gras G, Semoun O, Taboulet P, Molina JM, Simon F, Goudeau A, LeGoff J. 2011. High burden of non-influenza viruses in influenza-like illness in the early weeks of H1N1v epidemic in France. PLoS ONE 6:e23514.
38. Simmonds P, McIntyre C, Savolainen-Kopra C, Tapparel C, Mackay IM, Hovi T. 2010. Proposals for the classification of human rhinovirus species C into genotypically assigned types. J Gen Virol 91:2409-2419.
39. Tamura K, Nei M. 1993. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol Biol Evol 10:512-526.
40. Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S. 2011. MEG A5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731-2739.
41. Tapparel C, L'Huillier AG, Rougemont AL, Beghetti M, Barazzone-Argiroffo C, Kaiser L. 2009. Pneumonia and pericarditis in a child with HRV-C infection: A case report. J Clin Virol 45:157-160.
42. van der Zalm MM, Wilbrink B, van Ewijk BE, Overduin P, Wolfs TF, van der Ent CK. 2011. Highly frequent infections with human rhinovirus in healthy young children: A longitudinal cohort study. J Clin Virol 52:317-320.
43. Victoria JG, Kapoor A, Li L, Blinkova O, Slikas B, Wang C, Naeem A, Zaidi S, Delwart E. 2009. Metagenomic analyses of viruses in stool samples from children with acute flaccid paralysis. J Virol 83:4642-4651.