Real-time molecular beacon NASBA for rapid and sensitive detection of norovirus GII in clinical samples

Canadian Journal of Microbiology

Volumn 55, Issue 12, 2009, Pages 1375-1380

  Lamhoujeb, Safaa ^a   Charest, Hugues ^b   Fliss, Ismail ^c   Ngazoa, Solange ^c   Jean, Julie ^c  

^a HEALTH CANADA   (Canada)

^b INSTITUT NATIONAL DE SANTÉ PUBLIQUE DU QUÉBEC   (Canada)

^c LAVAL UNIVERSITY   (Canada)

Author keywords

Detection; ELISA; Norovirus; Real time NASBA; TaqMan RT PCR

Indexed keywords

CONTROLLED STUDY; DIAGNOSTIC ACCURACY; DIAGNOSTIC VALUE; DILUTION; ENZYME LINKED IMMUNOSORBENT ASSAY; FECES MICROFLORA; GENE DELETION; INTERMETHOD COMPARISON; MOLECULAR BEACON; MOLECULAR PROBE; NONHUMAN; NOROVIRUS; NOTE; NUCLEIC ACID SEQUENCE BASED AMPLIFICATION; OPEN READING FRAME; PRIORITY JOURNAL; REAL TIME NUCLEIC ACID SEQUENCE BASED AMPLIFICATION; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; SENSITIVITY AND SPECIFICITY; VIRUS DETECTION; VIRUS GENOME; VIRUS LOAD;

CALICIVIRIDAE INFECTIONS; FECES; GASTROENTERITIS; HUMANS; NOROVIRUS; OPEN READING FRAMES; SELF-SUSTAINED SEQUENCE REPLICATION; SENSITIVITY AND SPECIFICITY;

NOROVIRUS;

EID: 74549205376     PISSN: 00084166     EISSN: None     Source Type: Journal    
DOI: 10.1139/W09-105     Document Type: Note

References (28)

1. Ando, T., Monroe, S.S., Gentsch, J.R., Jin, Q., Lewis, D.C., and Glass, R.I. 1995. Detection and differentiation of antigenically distinct small round-structured viruses (Norwalk-like viruses) by reverse transcription-PCR and southern hybridization. J. Clin. Microbiol. 33(1): 64-71. PMID:7699068.
2. Cook, N. 2003. The use of NASBA for the detection of microbial pathogens in food and environmental samples. J. Microbiol. Methods, 53(2): 165-174. doi:10.1016/S0167-7012(03)00022-8. PMID:12654488.
3. de Bruin, E., Duizer, E., Vennema, H., and Koopmans, M.P. 2006. Diagnosis of Norovirus outbreaks by commercial ELISA or RTPCR. J. Virol. Methods, 137(2): 259-264. doi:10.1016/j. jviromet.2006.06.024. PMID:16901556.
4. Gonin, P., Couillard, M., and d'Halewyn, M.A. 2000. Genetic diversity and molecular epidemiology of Norwalk-like viruses. J. Infect. Dis., 182: 691-697.
5. González, G.G., Liprandi, F., and Ludert, J.E. 2006. Evaluation of a commercial enzyme immunoassay for the detection of norovirus antigen in fecal samples from children with sporadic acute gastroenteritis. J. Virol. Methods, 136(1-2): 289-291. doi:10. 1016/j.jviromet.2006.05.024. PMID:16806504.
6. Jothikumar, N., Lowther, J.A., Henshilwood, K., Lees, D.N., Hill, V.R., and Vinjé, J. 2005. Rapid and sensitive detection of noroviruses by using TaqMan-based one-step reverse transcription-PCR assays and application to naturally contaminated shellfish samples. Appl. Environ. Microbiol. 71(4): 1870-1875. doi:10. 1128/AEM.71.4.1870-1875.2005. PMID:15812014.
7. Kageyama, T., Kojima, S., Shinohara, M., Uchida, K., Fukushi, S., Hoshino, F.B., et al. 2003. Broadly reactive and highly sensitive assay for Norwalk-like viruses based on real-time quantitative reverse transcription-PCR. J. Clin. Microbiol. 41(4): 1548-1557. doi:10.1128/JCM.41.4.1548-1557. 2003. PMID:12682144.
8. Katayama, K., Shirato-Horikoshi, H., Kojima, S., Kageyama, T., Oka, T., Hoshino, F., et al. 2002. Phylogenetic analysis of the complete genome of 18 Norwalk-like viruses. Virology, 299(2):225-239. doi:10.1006/viro.2002. 1568. PMID:12202225.
9. Kojima, S., Kageyama, T., Fukushi, S., Hoshino, F.B., Shinohara, M., Uchida, K., et al. 2002. Genogroup-specific PCR primers for detection of Norwalk-like viruses. J. Virol. Methods, 100:107-114.
10. Lamhoujeb, S., Fliss, I., Ngazoa, S.E., and Jean, J. 2008. Evaluation of the persistence of infectious human noroviruses on food surfaces by using real-time nucleic acid sequence-based amplification. Appl. Environ. Microbiol. 74(11): 3349-3355. doi:10. 1128/AEM.02878-07. PMID:18378643.
11. Landry, M.L., Garner, R., and Ferguson, D. 2005. Real-time nucleic acid sequence-based amplification using molecular beacons for detection of enterovirus RNA in clinical specimens. J. Clin. Microbiol. 43(7): 3136-3139. doi:10.1128/JCM.43.7.3136-3139. 2005. PMID:16000425.
12. Loens, K., Beck, T., Goossens, H., Ursi, D., Overdijk, M., Sillekens, P., and Ieven, M. 2006. Development of conventional and realtime nucleic acid sequence-based amplification assays for detection of Chlamydophila pneumoniae in respiratory specimens. J. Clin. Microbiol. 44(4): 1241-1244. doi:10.1128/JCM.44.4.1241-1244.2006. PMID:16597845.
13. Loisy, F., Atmar, R.L., Guillon, P., Le Cann, P., Pommepuy, M., and Le Guyader, F.S. 2005. Real-time RT-PCR for norovirus screening in shellfish. J. Virol. Methods, 123(1): 1-7. doi:10. 1016/j.jviromet.2004.08.023. PMID:15582692.
14. Lopman, B.A., Adak, G.K., Reacher, M.H., and Brown, D.W. 2003. Two epidemiologic patterns of norovirus outbreaks: surveillance in England and Wales, 1992-2000. Emerg. Infect. Dis. 9(1): 71-77. PMID:12533284.
15. Marshall, J.A., Hellard, M.E., Sinclair, M.I., Fairley, C.K., Cox, B.J., Catton, M.G., et al. 2003. Incidence and characteristics of endemic Norwalk-like virus-associated gastroenteritis. J. Med. Virol. 69(4): 568-578. doi:10.1002/jmv.10346. PMID:12601766.
16. McClernon, D.R., Vavro, C., and St. Clair, M. 2006. Evaluation of a real-time nucleic acid sequence-based amplification assay using molecular beacons for detection of human immunodeficiency virus type 1. J. Clin. Microbiol. 44(6): 2280-2282. doi:10.1128/JCM.02187-05. PMID:16757640.
17. Monis, P.T., and Giglio, S. 2006. Nucleic acid amplification-based techniques for pathogen detection and identification. Infect. Genet. Evol. 6(1): 2-12. doi:10.1016/j.meegid.2005.08.004. PMID:16169776.
18. Niesters, H.G. 2002. Clinical virology in real time. J. Clin. Virol. 25(Suppl. 3): S3-S12. doi:10.1016/S1386-6532(02)00197-X. PMID:12467772.
19. Pang, X.L., Preiksaitis, J.K., and Lee, B. 2005. Multiplex real time RT-PCR for the detection and quantitation of norovirus genogroups I and II in patients with acute gastroenteritis. J. Clin. Virol. 33(2): 168-171. doi:10.1016/j.jcv.2004.12.014. PMID:15911433.
20. Parashar, U., Quiroz, E.S., Mounts, A.W., Monroe, S.S., Fankhauser, R.L., Ando, T., et al. 2001. "Norwalk-like viruses". Public health consequences and outbreak management. MMWR Recomm. Rep. 50(RR-9): 1-17. PMID:15580799.
21. Patterson, S.S., Smith, M.W., Casper, E.T., Huffman, D., Stark, L., Fries, D., and Paul, J.H. 2006. A nucleic acid sequence-based amplification assay for real-time detection of norovirus genogroup II. J. Appl. Microbiol. 101(4): 956-963. doi:10.1111/j. 1365-2672.2006.02934.x. PMID:16968307.
22. Rabenau, H.F., Stürmer, M., Buxbaum, S., Walczok, A., Preiser, W., and Doerr, H.W. 2003. Laboratory diagnosis of norovirus: which method is the best? Intervirology, 46(4): 232-238. doi:10.1159/000072433. PMID:12931032.
23. Richards, A.F., Lopman, B., Gunn, A., Curry, A., Ellis, D., Cotterill, H., et al. 2003. Evaluation of a commercial ELISA for detecting Norwalk-like virus antigen in faeces. J. Clin. Virol. 26(1): 109-115. doi:10.1016/S1386-6532(02)00267-6. PMID:12589841.
24. Rutjes, S.A., van den Berg, H.H., Lodder, W.J., and de Roda Husman, A.M. 2006. Real-time detection of noroviruses in surface water by use of a broadly reactive nucleic acid sequencebased amplification assay. Appl. Environ. Microbiol. 72(8):5349-5358. doi:10.1128/AEM.00751-06. PMID:16885286.
25. Tebbe, C.C., and Vahjen, W. 1993. Interference of humic acids and DNA extracted directly from soil in detection and transformation of recombinant DNA from bacteria and a yeast. Appl. Environ. Microbiol. 59(8): 2657-2665. PMID:7690221.
26. Templeton, K.E., Scheltinga, S.A., Graffelman, A.W., Van Schie, J.M., Crielaard, J.W., Sillekens, P., et al. 2003. Comparison and evaluation of real-time PCR, real-time nucleic acid sequencebased amplification, conventional PCR, and serology for diagnosis of Mycoplasma pneumoniae. J. Clin. Microbiol. 41(9): 4366-4371. doi:10.1128/JCM.41.9.4366-4371.2003. PMID:12958270.
27. Yates, S., Penning, M., Goudsmit, J., Frantzen, I., van de Weijer, B., van Strijp, D., and van Gemen, B. 2001. Quantitative detection of hepatitis B virus DNA by real-time nucleic acid sequence-based amplification with molecular beacon detection. J. Clin. Microbiol. 39(10): 3656-3665. doi:10.1128/JCM.39.10. 3656-3665.2001. PMID:11574587.
28. Zheng, D.P., Ando, T., Fankhauser, R.L., Beard, R.S., Glass, R.I., and Monroe, S.S. 2006. Norovirus classification and proposed strain nomenclature. Virology, 346(2): 312-323. doi:10.1016/j. virol.2005.11.015. PMID:16343580.