Simultaneous detection and genotyping of 'Norwalk-like viruses' by oligonucleotide array in a reverse line blot hybridization format

Journal of Clinical Microbiology

Volumn 38, Issue 7, 2000, Pages 2595-2601

  Vinjé, Jan ^a   Koopmans, Marion P G ^a  

^a NATIONAL INSTITUTE FOR PUBLIC HEALTH AND THE ENVIRONMENT   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

RNA POLYMERASE; VIRUS RNA;

ARTICLE; BACTERIUM DETECTION; DNA MICROARRAY; EPIDEMIC; FECES ANALYSIS; GASTROENTERITIS; GENOTYPE; HUMAN; INTERMETHOD COMPARISON; MAJOR CLINICAL STUDY; MOLECULAR HYBRIDIZATION; NONHUMAN; NORWALK GASTROENTERITIS VIRUS; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; VIRUS TYPING;

ANIMALIA; BACTERIA (MICROORGANISMS); DNA VIRUSES; MIRIDAE; NARCISSUS LATENT VIRUS; NOROVIRUS; NORWALK VIRUS; RNA VIRUSES;

EID: 0033915525     PISSN: 00951137     EISSN: None     Source Type: Journal    
DOI: 10.1128/jcm.38.7.2595-2601.2000     Document Type: Article

References (36)

1. Ando, T., S. S. Monroe, J. R. Gentsch, Q. Jin, D. C. Lewis, and R. I. Glass. 1995. Detection and differentiation of antigenically distinct small round-structured viruses (Norwalk-like viruses) by reverse transcription-PCR and Southern hybridization. J. Clin. Microbiol. 33:64-71.
2. Clarke, I. N., and P. R. Lambden. 1997. Viral zoonoses and food of animal origin: calicivirus and human disease. Arch. Virol Suppl. 13:141-152.
3. Dingle, K. E., P. R. Lambden, E. O. Caul, and I. N. Clarke. 1995. Human enteric caliciviridae: the complete genome sequence and expression of virus-like particles from a genetic group II small round-structured virus. J. Gen. Virol. 76:2349-2355.
4. Djuretic, T., P. G. Wall, M. J. Ryan, H. S. Evans, G. K. Adak, and J. M. Cowden. 1996. General outbreaks of infectious intestinal disease in England and Wales 1992 to 1994. Commun. Dis. Rep. CDR Rev. 6:R57-R63.
5. Green, J., J. P. Norcott, D. Lewis, C. Arnold, and D. W. G. Brown. 1993. Norwalk-like viruses in the UK: demonstration of genomic diversity by PCR sequencing. J. Clin. Microbiol. 31:3007-3012.
6. Green, J., C. I. Gallimore, J. P. Norcott, D. Lewis, and D. W. G. Brown. 1995. Broadly reactive reverse transcriptase polymerase chain reaction for the diagnosis of SRSV-associated gastroenteritis. J. Med Virol. 47:392-398.
7. Green, J., K. Henshilwood, C. I. Gallimore, D. W. G. Brown, and D. N. Lees. 1998. A nested reverse transcriptase PCR assay for detection of small round-structured viruses in environmentally contaminated molluscan shellfish. Appl. Environ. Microbiol. 64:858-863.
8. Green, J., J. Vinjé, C. I. Gallimore, M. P. G. Koopmans, A. Hale, and D. W. G. Brown. Capsid protein diversity among small round-structured viruses. Virus Genes, in press.
9. Green, K. Y. 1997. The role of human caliciviruses in epidemic gastroenteritis. Arch. Virol. Suppl. 13:153-165.
10. Green, S. M., K. E. Dingle, P. R. Lambden, E. O. Caul, C. R. Ashley, and I. N. Clarke. 1994. Human enteric Caliciviridae: a new prevalent SRSV group defined by RNA-dependent RNA polymerase and capsid diversity. J. Gen. Virol. 75:1883-1888.
11. Green, S. M., P. R. Lambden, E. O. Caul, C. R. Ashley, and I. N. Clarke. 1995. Capsid diversity in small round-structured viruses: molecular characterization of an antigenically distinct human enteric calicivirus. Virus Res. 37:271-283.
12. Green, S. M., P. R. Lambden, E. O. Caul, and I. N. Clarke. 1997. Capsid sequence diversity in small round structured viruses from recent UK outbreaks, of gastroenteritis. J. Med. Virol. 52:14-19.
13. Hardy, M. E., S. F. Kramer, J. J. Treanor, and M. K. Estes. 1997. Human calicivirus genogroup II capsid diversity revealed by analysis of the prototype Snow Mountain agent. Arch. Virol. 142:1469-1479.
14. Jiang, X., M. Wang, K. Wang, and M. K. Estes. 1993. Sequence and genomic organization of Norwalk virus. Virology 195:51-61.
15. Jiang, X., D. O. Matson, G. M. Ruiz-Palacios, J. Hu, J. Treanor, and L. K. Pickering. 1995. Expression, self-assembly, and antigenicity of a Snow Mountain agent-like calicivirus capsid protein. J. Clin. Microbiol. 33:1452-1455.
16. Jukes, T. H., and C. R. Cantor. 1969. Evolution of protein molecules, p. 21-132. In H. H. Munro (ed.), Mammalian protein metabolism. Academic Press, Inc., New York, N.Y.
17. Kamerbeek, J., L. Schouls, A. Kolk, M. van Agterveld, D. van Soolingen, S. Kuijper, A. Bunschoten, H. Molhuizen, R. Shaw, M. Goyal, and J. van Embden. 1997. Simultaneous detection and strain differentiation of Mycobacterium tuberculosis for diagnosis and epidemiology. J. Clin. Microbiol. 35:907-914.
18. Kaufhold, A., A. Podbielski, G. Baumgarten, M. Bolkpoel, J. Top, and L. M. Schouls. 1994. Rapid typing of group A streptococci by the use of DNA amplification and nonradioactive allele specific oligonucleotide probes. FEMS Microbiol. Lett. 119:14-26.
19. Koopmans, M. P. G., J. Vinjé, M. de Wit, I. Leenen, W. van der Poel, and Y. van Duijnhoven. 2000. Molecular epidemiology of human enteric caliciviruses in The Netherlands. J. Infect. Dis. 181: S262-S269.
20. Lambden, P. R., E. O. Caul, C. R. Ashley, and I. N. Clarke. 1993. Sequence and genome organization of a human small round-structured (Norwalk-like) virus. Science 259:516-519.
21. Lew, J. F., A. Z. Kapikian, X. Jiang, M. K. Estes, and K. Y. Green. 1994. Molecular characterization and expression of the capsid protein of a Norwalk-like virus recovered from a Desert Shield troop with gastroenteritis. Virology 200:319-325.
22. Lew, J. F., M. Petric, A. Z. Kapikian, X. Jiang, M. K. Estes, and K. Y. Green. 1994. Identification of minireovirus as a Norwalk-like virus in pediatric patients with gastroenteritis. J. Virol. 68:3391-3396.
23. Lew, J. F., A. Z. Kapikian, J. Valdesuso, and K. Y. Green. 1994. Molecular characterization of Hawaii virus and other Norwalk-like viruses: evidence for genetic polymorphism among human caliciviruses. J. Infect. Dis. 170:535-542.
24. Lodder, W. L., J. Vinjé, R. van der Heide, A-M Roda Husman, E. J. T. M. Leenen, and M. P. G. Koopmans. 1999. Molecular detection of "Norwalk-like viruses" in sewage. Appl. Environ. Microbiol. 65:5624-5627.
25. Nakayama, M., Y. Ueda, H. Kawamoto, Y. Han-jun, K. Saito, O. Nishio, and H. Ushijima. 1996. Detection and sequencing of Norwalk-like viruses from stool samples in Japan using RT-PCR amplification. Microbiol. Immunol. 40:317-320.
26. Nei, M. 1987. Distance matrix methods, p. 293-298. In M. Nei (ed.), Molecular evolutionary genetics. Columbia University Press, New York, N.Y.
27. Noel, J. S., T. Ando, J. P. Leite, K. Y. Green, K. E. Dingle, M. K. Estes, Y. Seto, S. S. Monroe, and R. I. Glass. 1917. Correlation of patient immune responses with genetically characterized small round-structured viruses involved in outbreaks of nonbacterial acute gastroenteritis in the United States, 1990 to 1995. J. Med. Virol. 53:372-383.
28. Norcott, J. P., J. Green, D. Lewis, M. K. Estes, K. L. Barlow, and D. W. G. Brown. 1994. Genomic diversity of small round structured viruses in the United Kingdom. J. Med. Virol. 44:280-286.
29. Rijpkema, S. G. T., M. J. C. H. Molkenboer, L. M. Schouls, F. Jongejan, and J. F. P. Schellekens. 1995. Simultaneous detection and genotyping of three genomic groups of Borrelia burgdorferi sensu lato in Dutch Ixodes ricinus ticks by characterization of the amplified intergenic spacer region between 5S and 23S rRNA genes. J. Clin. Microbiol. 33:3091-3095.
30. Sugieda, M., K. Nakajima, and S. Nakajima. 1996. Outbreaks of Norwalk-like virus-associated gastroenteritis traced to shellfish: coexistence of two genotypes in one specimen. Epidemiol. Infect. 116:339-346.
31. Van der Peer, Y., and R. de Wachter. 1994. TREECON for windows: a software package for the construction and drawing of evolutionary trees for the Microsoft Windows environment. Comput. Appl. Biosci. 10:569-570.
32. Vinjé, J., and M. P. G. Koopmans. 1996. Molecular detection and epidemiology of small round-structured viruses in outbreaks of gastroenteritis in The Netherlands. J. Infect. Dis. 174;610-615.
33. Vinjé, J., S. A. Altena, and M. P. G. Koopmans. 1997. The incidence and genetic variability of small round-structured viruses in outbreaks of gastroenteritis in The Netherlands. J. Infect. Dis. 176:1374-1378.
34. Vinjé, J., J. Green, D. C. Lewis, C. I. Gallimore, D. W. G. Brown, and M. P. G. Koopmans. 2000. Genetic polymorphism across regions of the three open reading frames of "Norwalk-like viruses." Arch. Virol. 145:1-19.
35. Wang, X., X. Jiang, H. P. Madore, J. Gray, U. Desselberger, T. Ando, Y. Seto, I. Oishi, J. F. Lew, K. Y. Green, and M. K. Estes. 1994. Sequence diversity of small, round-structured viruses in the Norwalk virus group. J. Virol. 68:5982-5990.
36. Zhang, Y., M. Y. Coyne, S. G. Will, C. H. Levenson, and E. S. Kawasaki. 1991. Single-base mutational analysis of cancer and genetic diseases using membrane bound modified oligonucleotides. Nucleic Acids Res. 19:3929-3933.