Performance of a taqman assay for improved detection and quantification of human rhinovirus viral load

Scientific Reports

Volumn 6, Issue , 2016, Pages

  Ng, Kim Tien ^a   Chook, Jack Bee ^a   Oong, Xiang Yong ^a   Chan, Yoke Fun ^a   Chan, Kok Gan ^b   Hanafi, Nik Sherina ^a   Pang, Yong Kek ^a   Kamarulzaman, Adeeba ^a   Tee, Kok Keng ^a  

^a UNIVERSITY OF MALAYA   (Malaysia)

^b UNIVERSITY OF MALAYA   (Malaysia)

Author keywords

[No Author keywords available]

Indexed keywords

ADOLESCENT; ADULT; AGED; GENETICS; HUMAN; MIDDLE AGED; PATHOGENICITY; PHYLOGENY; PICORNAVIRUS INFECTION; PROCEDURES; REAL TIME POLYMERASE CHAIN REACTION; RESPIRATORY TRACT INFECTION; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RHINOVIRUS; VERY ELDERLY; VIROLOGY; VIRUS LOAD;

ADOLESCENT; ADULT; AGED; AGED, 80 AND OVER; HUMANS; MIDDLE AGED; PHYLOGENY; PICORNAVIRIDAE INFECTIONS; REAL-TIME POLYMERASE CHAIN REACTION; RESPIRATORY TRACT INFECTIONS; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RHINOVIRUS; VIRAL LOAD;

EID: 84990909801     PISSN: None     EISSN: 20452322     Source Type: Journal    
DOI: 10.1038/srep34855     Document Type: Article

References (42)

1. Palmenberg, A. C., Rathe, J. A. & Liggett, S. B. Analysis of the complete genome sequences of human rhinovirus. J Allergy Clin Immunol 125, 1190-1199 (2010).
2. Hayden, F. G. Rhinovirus and the lower respiratory tract. Rev Med Virol 14, 17-31 (2004).
3. Choi, S. H., et al. Clinical and molecular characterization of rhinoviruses A, B, and C in adult patients with pneumonia. J Clin Virol 63, 70-75 (2015).
4. Pavia, A. T. Viral infections of the lower respiratory tract: old viruses, new viruses, and the role of diagnosis. Clin Infect Dis 52 Suppl 4, S284-289 (2011).
5. Hai, L. T., et al. Fatal Respiratory Infections Associated with Rhinovirus Outbreak, Vietnam. Emerg Infect Dis 18, 1886-1888 (2012).
6. Smyth, A. R., Smyth, R. L., Tong, C. Y., Hart, C. A. & Heaf, D. P. Effect of respiratory virus infections including rhinovirus on clinical status in cystic fibrosis. Arch Dis Child 73, 117-120 (1995).
7. Friedlander, S. L. & Busse, W. W. The role of rhinovirus in asthma exacerbations. J Allergy Clin Immunol 116, 267-273 (2005).
8. Gerna, G., et al. Correlation of rhinovirus load in the respiratory tract and clinical symptoms in hospitalized immunocompetent and immunocompromised patients. J Med Virol 81, 1498-1507 (2009).
9. Takeyama, A., et al. Rhinovirus load and disease severity in children with lower respiratory tract infections. J Med Virol 84, 1135-1142 (2012).
10. Esposito, S., et al. Impact of rhinovirus nasopharyngeal viral load and viremia on severity of respiratory infections in children. Eur J Clin Microbiol Infect Dis 33, 41-48 (2014).
11. Do, D. H., et al. A one-step, real-time PCR assay for rapid detection of rhinovirus. J Mol Diagn 12, 102-108 (2010).
12. Sachs, L. A., Schnurr, D., Yagi, S., Lachowicz-Scroggins, M. E. & Widdicombe, J. H. Quantitative real-time PCR for rhinovirus, and its use in determining the relationship between TCID50 and the number of viral particles. J Virol Methods 171, 212-218 (2011).
13. Kotla, S., Major, S. C. & Gustin, K. E. Rapid detection and quantitation of poliovirus and rhinovirus sequences in viral stocks and infected cells. J Virol Methods 157, 32-39 (2009).
14. Lee, W. M., et al. Molecular identification and quantification of human rhinoviruses in respiratory samples. Methods Mol Biol 1221, 25-38 (2015).
15. Denlinger, L. C., et al. Lower airway rhinovirus burden and the seasonal risk of asthma exacerbation. Am J Respir Crit Care Med 184, 1007-1014 (2011).
16. Zhang, J. & Byrne, C. D. Differential priming of RNA templates during cDNA synthesis markedly affects both accuracy and reproducibility of quantitative competitive reverse-transcriptase PCR. Biochem J 337 (Pt 2), 231-241 (1999).
17. Bustin, S. A. & Nolan, T. Pitfalls of quantitative real-time reverse-transcription polymerase chain reaction. J Biomol Tech 15, 155-166 (2004).
18. Loens, K., et al. Performance of different mono- and multiplex nucleic acid amplification tests on a multipathogen external quality assessment panel. J Clin Microbiol 50, 977-987 (2012).
19. Raymaekers, M., Smets, R., Maes, B. & Cartuyvels, R. Checklist for optimization and validation of real-time PCR assays. J Clin Lab Anal 23, 145-151 (2009).
20. Poehling, K. A., et al. The underrecognized burden of influenza in young children. N Engl J Med 355, 31-40 (2006).
21. Altmann, M., et al. Unchanged Severity of Influenza A(H1N1)pdm09 Infection in Children during First Postpandemic Season. Emerg Infect Dis 18, 1755-1762 (2012).
22. Kieninger, E., et al. High rhinovirus burden in lower airways of children with cystic fibrosis. Chest 143, 782-790 (2013).
23. Message, S. D., et al. Rhinovirus-induced lower respiratory illness is increased in asthma and related to virus load and Th1/2 cytokine and IL-10 production. Proc Natl Acad Sci USA 105, 13562-13567 (2008).
24. Xiao, Q., et al. Impact of Human Rhinovirus Types and Viral Load on the Severity of Illness in Hospitalized Children With Lower Respiratory Tract Infections. Pediatr Infect Dis J 34, 1187-1192 (2015).
25. Adams, O., Weis, J., Jasinska, K., Vogel, M. & Tenenbaum, T. Comparison of human metapneumovirus, respiratory syncytial virus and Rhinovirus respiratory tract infections in young children admitted to hospital. J Med Virol 87, 275-280 (2015).
26. Kennedy, J. L., et al. Comparison of viral load in individuals with and without asthma during infections with rhinovirus. Am J Respir Crit Care Med 189, 532-539 (2014).
27. Svec, D., Tichopad, A., Novosadova, V., Pfaffl, M. W. & Kubista, M. How good is a PCR efficiency estimate: Recommendations for precise and robust qPCR efficiency assessments. Biomolecular Detection and Quantification 3, 9-16 (2015).
28. Malnati, M. S., et al. A universal real-time PCR assay for the quantification of group-M HIV-1 proviral load. Nat Protoc 3, 1240-1248 (2008).
29. Midgley, C. M., et al. Severe respiratory illness associated with enterovirus D68 - Missouri and Illinois. MMWR Morb Mortal Wkly Rep 63, 798-799 (2014).
30. Ritchie, A. I., et al. Pathogenesis of Viral Infection in Exacerbations of Airway Disease. Ann Am Thorac Soc 12 Suppl 2, S115-132 (2015).
31. Brendish, N. J., Schiff, H. F. & Clark, T. W. Point-of-care testing for respiratory viruses in adults: The current landscape and future potential. J Infect 71, 501-510 (2015).
32. Lessler, J., et al. Incubation periods of acute respiratory viral infections: a systematic review. Lancet Infect Dis 9, 291-300 (2009).
33. Peltola, V., Waris, M., Kainulainen, L., Kero, J. & Ruuskanen, O. Virus shedding after human rhinovirus infection in children, adults and patients with hypogammaglobulinaemia. Clin Microbiol Infect 19, E322-327 (2013).
34. Peltola, V., et al. Clinical effects of rhinovirus infections. J Clin Virol 43, 411-414 (2008).
35. Piralla, A., et al. Clinical severity and molecular typing of human rhinovirus C strains during a fall outbreak affecting hospitalized patients. J Clin Virol 45, 311-317 (2009).
36. Lauinger, I. L., et al. Patient characteristics and severity of human rhinovirus infections in children. J Clin Virol 58, 216-220 (2013).
37. Jackson, G. G., Dowling, H. F., Spiesman, I. G. & Boand, A. V. Transmission of the common cold to volunteers under controlled conditions. I. The common cold as a clinical entity. AMA Arch Intern Med 101, 267-278 (1958).
38. Yale, S. H. & Liu, K. Echinacea purpurea therapy for the treatment of the common cold: a randomized, double-blind, placebocontrolled clinical trial. Arch Intern Med 164, 1237-1241 (2004).
39. Loens, K., Bergs, K., Ursi, D., Goossens, H. & Ieven, M. Evaluation of NucliSens easyMAG for automated nucleic acid extraction from various clinical specimens. J Clin Microbiol 45, 421-425 (2007).
40. Pabbaraju, K., Wong, S., Tokaryk, K. L., Fonseca, K. & Drews, S. J. Comparison of the Luminex xTAG respiratory viral panel with xTAG respiratory viral panel fast for diagnosis of respiratory virus infections. J Clin Microbiol 49, 1738-1744 (2011).
41. Savolainen, C., Blomqvist, S., Mulders, M. N. & Hovi, T. Genetic clustering of all 102 human rhinovirus prototype strains: serotype 87 is close to human enterovirus 70. J Gen Virol 83, 333-340 (2002).
42. Tamura, K., Stecher, G., Peterson, D., Filipski, A. & Kumar, S. MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. Mol Biol Evol 30, 2725-2729 (2013).