Lyssavirus detection and typing using pyrosequencing

Journal of Clinical Microbiology

Volumn 49, Issue 5, 2011, Pages 1932-1938

  De Benedictis, Paola ^a   De Battisti, Cristian ^a   Dacheux, Laurent ^b   Marciano, Sabrina ^a   Ormelli, Silvia ^a   Salomoni, Angela ^a   Caenazzo, Silvia Tiozzo ^a   Lepelletier, Anthony ^b   Bourhy, Hervé ^b   Capua, Ilaria ^a   Cattoli, Giovanni ^a  

^a ISTITUTO ZOOPROFILATTICO SPERIMENTALE DELLE VENEZIE   (Italy)

^b INSTITUT PASTEUR   (France)

Author keywords

[No Author keywords available]

Indexed keywords

VIRUS RNA;

ANIMAL CELL; ANIMAL TISSUE; ARTICLE; CONTROLLED STUDY; DIAGNOSTIC TEST ACCURACY STUDY; DILUTION; HUMAN; HUMAN TISSUE; MOUSE; NONHUMAN; NUCLEOPROTEIN GENE; PRIORITY JOURNAL; PYROSEQUENCING; RABIES; RABIES VIRUS; RETROSPECTIVE STUDY; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; SENSITIVITY ANALYSIS; SENSITIVITY AND SPECIFICITY; VIRUS DETECTION; VIRUS GENE; VIRUS IDENTIFICATION; VIRUS TITRATION; VIRUS TYPING;

ANIMALS; HUMANS; NUCLEOPROTEINS; RABIES; RABIES VIRUS; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA, VIRAL; SENSITIVITY AND SPECIFICITY; SEQUENCE ANALYSIS, DNA; VIRAL PROTEINS; VIROLOGY;

ANIMALIA; LYSSAVIRUS; RABIES VIRUS; RNA VIRUSES;

EID: 79955548617     PISSN: 00951137     EISSN: 1098660X     Source Type: Journal    
DOI: 10.1128/JCM.02015-10     Document Type: Article

References (40)

1. Anonymous. 2005. WHO expert consultation on rabies: first report. World Health Organization, Geneva, Switzerland.
2. Anonymous. 2010. OIE manual of diagnostic tests and vaccines for terrestrial animals. OIE, Paris, France
3. Black, E. M., J. P. Lowings, J. Smith, P. R. Heaton, and L. M. McElhinney. 2002. A rapid RT-PCR method to differentiate six established genotypes of rabies and rabies-related viruses using TaqMan technology. J. Virol. Methods 105:25-35.
4. Cattoli, G., et al. 2009. False-negative results of a validated real-time PCR protocol for diagnosis of Newcastle disease due to genetic variability of the matrix gene. J. Clin. Microbiol. 47:3791-3792. doi:10.1128/JCM.00895-09.
5. Coertse, J., J. Weyer, L. H. Nel, and W. Markotter. 2010. Improved PCR methods for the detection of African rabies and rabies-related lyssaviruses. J. Clin. Microbiol. 48:3949-3955. doi:10.1128/JCM.01256-10.
6. Crepin, P., et al. 1998. Intravitam diagnosis of human rabies by PCR using saliva and cerebrospinal fluid. J. Clin. Microbiol. 36:1117-1121.
7. Dacheux, L., et al. 2010. Application of broad-spectrum resequencing microarray for genotyping rhabdoviruses. J. Virol. 84:9557-9574. doi:10.1128/JVI.00771-10.
8. Dacheux, L., et al. 2009. European bat lyssavirus transmission among cats, Europe. Emerg. Infect. Dis. 15:280-284.
9. Dacheux, L., et al. 2008. A reliable diagnosis of human rabies based on analysis of skin biopsy specimens. Clin. Infect. Dis. 47:1410-1417. doi:10.1086/592969.
10. Dacheux, L., et al. 2010. More accurate insight into the incidence of human rabies in developing countries through validated laboratory techniques. PLoS Negl. Trop. Dis. 4:e765. doi:10.1371/journal.pntd.0000765.
11. David, D., et al. 2002. Rabies virus detection by RT-PCR in decomposed naturally infected brains. Vet. Microbiol. 87:111-118.
12. De Benedictis, P., et al. 2008. Emergence of fox rabies in north-eastern Italy. Euro Surveill. 13:pii:19033.
13. Delmas, O., et al. 2008. Genomic diversity and evolution of the lyssaviruses. PLoS One 3:e2057. doi:10.1371/journal.pone.0002057.
14. EPA. 2004. Quality assurance/quality control guidance for laboratories performing PCR analyses on environmental samples. U.S. Environmental Protection Agency, Cincinnati, OH.
15. Everitt, R. S. 1989. Statistical methods for medical investigation. Oxford University Press, New York, NY.
16. Fooks, A. R., et al. 2009. Emerging technologies for the detection of rabies virus: challenges and hopes in the 21st century. PLoS Negl. Trop. Dis. 3:e530. doi:10.1371/journal.pntd.0000530.
17. Fronhoffs, S., et al. 2002. A method for the rapid construction of cRNA standard curves in quantitative real-time reverse transcription polymerase chain reaction. Mol. Cell. Probes 16:99-110. doi:10.1006/mcpr.2002.0405.
18. Gurrala, R., et al. 2009. Development of a DNA microarray for simultaneous detection and genotyping of lyssaviruses. Virus Res. 144:202-208. doi: 10.1016/j.virusres.2009.04.028.
19. Heaton, P. R., et al. 1997. Heminested PCR assay for detection of six genotypes of rabies and rabies-related viruses. J. Clin. Microbiol. 35:2762-2766.
20. Hoffmann, B., et al. 25 August 2010. Improved safety for the molecular diagnosis of classical rabies viruses using a TaqMan real-time RT-PCR "double check" strategy. J. Clin. Microbiol. doi:10.1128/JCM.00612-10.
21. Hoorfar, J., et al. 2004. Practical considerations in design of internal amplification controls for diagnostic PCR assays. J. Clin. Microbiol. 42:1863-1868.
22. Kissi, B., N. Tordo, and H. Bourhy. 1995. Genetic polymorphism in the rabies virus nucleoprotein gene. Virology 209:526-537. doi:10.1006/viro.1995. 1285.
23. Knobel, D. L., et al. 2005. Re-evaluating the burden of rabies in Africa and Asia. Bull. World Health Organ. 83:360-368. doi:/S0042-96862005000500012.
24. Kuzmin, I. V., et al. 2010. Shimoni bat virus, a new representative of the Lyssavirus genus. Virus Res. 149:197-210. doi:10.1016/j.virusres.2010.01. 018.
25. Leonova, G. N., et al. 2009. A fatal case of bat lyssavirus infection in Primorye Territory of the Russian Far East. WHO Rabies Bull. Eur. 33:5-8.
26. Lorenz, R. G., and K. Bogel. 1973. Calculation of titres and their significance, p. 321-335. In M. M. Kaplan and H. Koprowski (ed.), Laboratory techniques in rabies, 3rd ed. World Health Organization, Geneva, Switzerland.
27. Ly, S., et al. 2009. Rabies situation in Cambodia. PLoS Negl. Trop. Dis. 3:e511. doi:10.1371/journal.pntd.0000511.
28. Mallewa, M., et al. 2007. Rabies encephalitis in malaria-endemic area, Malawi, Africa. Emerg. Infect. Dis. 13:136-139.
29. Marsh, S. 2007. Pyrosequencing applications. Methods Mol. Biol. 373:15-24.
30. Nadin-Davis, S. A., M. Sheen, and A. I. Wandeler. 2009. Development of real-time reverse transcriptase polymerase chain reaction methods for human rabies diagnosis. J. Med. Virol. 81:1484-1497. doi:10.1002/jmv.21547.
31. Nel, L. H., and W. Markotter. 2007. Lyssaviruses. Crit. Rev. Microbiol. 33:301-324. doi:10.1080/10408410701647602.
32. Pizzuto, M. S., C. De Battisti, S. Marciano, I. Capua, and G. Cattoli. 2010. Pyrosequencing analysis for a rapid classification of fowl adenovirus species. Avian Pathol. 39:391-398. doi:10.1080/03079457.2010.510499.
33. Seki, F., N. Ono, R. Yamaguchi, and Y. Yanagi. 2003. Efficient isolation of wild strains of canine distemper virus in Vero cells expressing canine SLAM (CD150) and their adaptability to marmoset B95a cells. J. Virol. 77:9943-9950. (Pubitemid 37122075)
34. 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. doi:10.1093/molbev/msm092.
35. Vázquez-Morón, S., A. Avellon, and J. E. Echevarria. 2006. RT-PCR for detection of all seven genotypes of Lyssavirus genus. J. Virol. Methods 135:281-287. doi:10.1016/j.jviromet.2006.03.008.
36. Wacharapluesadee, S., and T. Hemachudha. 2001. Nucleic-acid sequence based amplification in the rapid diagnosis of rabies. Lancet 358:892-893. doi:10.1016/S0140-6736(01)06041-X. (Pubitemid 32900576)
37. Wacharapluesadee, S., and T. Hemachudha. 2010. Ante- and post-mortem diagnosis of rabies using nucleic acid-amplification tests. Expert Rev. Mol. Diagn. 10:207-218. doi:10.1586/erm.09.85.
38. Wacharapluesadee, S., et al. 2008. Development of a TaqMan real-time RT-PCR assay for the detection of rabies virus. J. Virol. Methods 151:317-320. doi:10.1016/j.jviromet.2008.05.004.
39. Wakeley, P. R., et al. 2005. Development of a real-time, TaqMan reverse transcription-PCR assay for detection and differentiation of lyssavirus genotypes 1, 5, and 6. J. Clin. Microbiol. 43:2786-2792. doi:10.1128/JCM.43.6. 2786-2792.2005.
40. Xing, Z., et al. 2008. Inability of real-time reverse transcriptase PCR assay to detect subtype H7 avian influenza viruses isolated from wild birds. J. Clin. Microbiol. 46:1844-1846. doi:10.1128/JCM.02426-07.