Single base substitutions in the capsid region of the norovirus genome during viral shedding in cases of infection in areas where norovirus infection is endemic

Journal of Clinical Microbiology

Volumn 46, Issue 10, 2008, Pages 3397-3403

  Obara, Mayumi ^a   Hasegawa, Sumiyo ^a   Iwai, Masae ^a   Horimoto, Eiji ^a   Nakamura, Kazuya ^a   Kurata, Takeshi ^a   Saito, Naohito ^b   Oe, Hiroshi ^b   Takizawa, Takenori ^a  

^a TOYAMA INSTITUTE OF HEALTH   (Japan)

^b Niikawa Health Center   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID SUBSTITUTION; ARTICLE; CLINICAL ARTICLE; CONTROLLED STUDY; ENDEMIC DISEASE; GASTROENTERITIS; GENE SEQUENCE; HUMAN; MOLECULAR CLONING; NONHUMAN; NOROVIRUS; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; REAL TIME POLYMERASE CHAIN REACTION; SEQUENCE ALIGNMENT; VIRUS CAPSID; VIRUS GENE; VIRUS INFECTION; VIRUS SHEDDING;

AMINO ACID SEQUENCE; AMINO ACID SUBSTITUTION; BASE SEQUENCE; CALICIVIRIDAE INFECTIONS; CAPSID PROTEINS; DISEASE OUTBREAKS; ENDEMIC DISEASES; FECES; GASTROENTERITIS; HUMANS; JAPAN; MOLECULAR SEQUENCE DATA; NOROVIRUS; PHYLOGENY; POINT MUTATION; POLYMERASE CHAIN REACTION; RNA, VIRAL; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY; VIRUS SHEDDING;

MIRIDAE; NOROVIRUS;

EID: 53649106821     PISSN: 00951137     EISSN: None     Source Type: Journal    
DOI: 10.1128/JCM.01932-07     Document Type: Article

References (28)

1. Allen, D. J., J. J. Gray, C. I. Gallimore, J. Xerry, and M. Iturriza-Gómara. 2008. Analysis of amino acid variation in the P2 domain of the GII-4 norovirus VP1 protein reveals putative variant-specific epitopes. PLoS ONE 3:e1485.
2. 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 roundstructured viruses (Norwalk-like viruses) by reverse transcription-PCR and southern hybridization. J. Clin. Microbiol. 33:64-71.
3. Ando, T., Q. Jin, J. R. Gentsch, S. S. Monroe, J. S. Noel, S. F. Dowell, H. G. Cicirello, M. A. Kohn, and R. I. Glass. 1995. Epidemiologic applications of novel molecular methods to detect and differentiate small round structured viruses (Norwalk-like viruses). J. Med. Virol. 47:145-152.
4. Ando, T., J. S. Noel, and R. L. Fankhauser. 2000. Genetic classification of "Norwalk-like viruses." J. Infect. Dis. 181(Suppl. 2):S336-348.
5. Anonymous. 2007. Infectious Disease Surveillance Center prompt report. Infectious Disease Surveillance Center, Tokyo, Japan. http://idsc.nih.go.jp/iasr/noro.html.
6. Atmar, R. L., and M. K. Estes. 2001. Diagnosis of noncultivatable gastroenteritis viruses, the human caliciviruses. Clin. Microbiol. Rev. 14:15-37.
7. Belliot, G., J. S. Noel, J.-F. Li, Y. Seto, C. D. Humphrey, T. Ando, R. I. Glass, and S. S. Monroe. 2001. Characterization of capsid genes, expressed in the baculovirus system, of three new genetically distinct strains of "Norwalk-like viruses." J. Clin. Microbiol. 39:4288-4295.
8. Daniels, N. A., D. A. Bergmire-Sweat, K. J. Schwab, K. A. Hendricks, S. Reddy, S. M. Rowe, R. L. Fankhauser, S. S. Monroe, R. L. Atmar, R. I. Glass, and P. Mead. 2000. A foodborne outbreak of gastroenteritis associated with Norwalk-like viruses: first molecular traceback to deli sandwiches contaminated during preparation. J. Infect. Dis. 181:1467-1470.
9. Dingle, K. E., et al. 2004. Mutation in a Lordsdale norovirus epidemic strain as a potential indicator of transmission routes. J. Clin. Microbiol. 42:3950-3957.
10. Efron, B., E. Halloran, and S. Holmes. 1996. Bootstrap confidence levels for phylogenetic trees. Proc. Natl. Acad. Sci. USA 93:13429-13434.
11. García, C., H. L. DuPont, K. Z. Long, J. I. Santos, and G. Ko. 2006. Asymptomatic norovirus infection in Mexican children. J. Clin. Microbiol. 44:2997-3000.
12. Green, J., J. P. Norcott, D. Lewis, C. Arnold, and D. W. G. Brown. 1993. Norwalk-like viruses: demonstration of genomic diversity by polymerase chain reaction. J. Clin. Microbiol. 31:3007-3012.
13. Green, J., C. I. Gallimore, J. P. Norcott, D. Lewis, and D. W. Brown. 1995. Broadly reactive reverse transcriptase polymerase chain reaction for the diagnosis of SRSV-associated gastroenteritis. J. Med. Virol. 47:392-398.
14. Jiang, X., D. Y. Graham, K. Wang, and M. K. Estes. 1990. Norwalk virus genome cloning and characterization. Science 250:1580-1583.
15. Johansson, P. J. H., M. Torvén, A.-C. Hammarlund, U. Björne, K.-O. Hedlund, and L. Svensson. 2002. Food-borne outbreak of gastroenteritis associated with genogroup I calicivirus. J. Clin. Microbiol. 40:794-798.
16. Kageyama, T., S. Kojima, M. Shinohara, K. Uchida, S. Fukushi, F. B. Hoshino, N. Takeda, and K. Katayama. 2003. Broadly reactive and highly sensitive assay for Norwalk-like viruses based on real-time quantitative reverse transcription-PCR. J. Clin. Microbiol. 41:1548-1557.
17. Katayama, K., H. Shirato-Horikoshi, S. Kojima, T. Kageyama, T. Oka, F. B. Hoshino, S. Fukushi, M. Shinohara, K. Uchida, Y. Suzuki, T. Gojobori, and N. Takeda. 2002. Phylogenetic analysis of the complete genome of 18 Norwalk-like viruses. Virology 299:225-239.
18. Kimura, M. 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 16:111-120.
19. Kojima, S., T. Kageyama, S. Fukushi, F. B. Hoshino, M. Shinohara, K. Uchida, K. Natori, N. Takeda, and K. Katayama. 2002. Genogroup-specific PCR primers for detection of Norwalk-like viruses. J. Virol. Methods 100: 107-114.
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. Nilsson, M., K.-O. Hedlund, M. Thorhagen, G. Larson, K. Johansen, A. Ekspong, and L. Svensson. 2003. Evolution of human calicivirus RNA in vivo: accumulation of mutations in the protruding P2 domain of the capsid leads to structural changes and possibly a new phenotype. J. Virol. 77:13117- 13124.
22. 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. 1997. 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.
23. Phan, T. G., K. Kaneshi, Y. Ueda, S. Nakaya, S. Nishimura, A. Yamamoto, K. Sugita, S. Takanashi, S. Okitsu, and H. Ushijima. 2007. Genetic heterogeneity, evolution, and recombination in noroviruses. J. Med. Virol. 79:1388-1400.
24. Prasad, B. V. V., M. E. Hardy, T. Dokland, J. Bella, M. G. Rossmann, and M. K. Estes. 1999. X-ray crystallographic structure of the Norwalk virus capsid. Science 286:287-290.
25. Rockx, B., M. De Wit, H. Vennema, J. Vinjé, E. De Bruin, Y. Van Duynhoven, and M. Koopmans. 2002. Natural history of human calicivirus infection: a prospective cohort study. Clin. Infect. Dis. 35:246-253.
26. Sasaki, Y., A. Kai, Y. Hayashi, T. Shinkai, Y. Noguchi, M. Hasegawa, K. Sadamasu, K. Mori, Y. Tabei, M. Nagashima, S. Morozumi, and T. Yamamoto. 2006. Multiple viral infections and genomic divergence among noroviruses during an outbreak of acute gastroenteritis. J. Clin. Microbiol. 44:790-797.
27. Vinjé, J., J. Green, D. C. Lewis, C. I. Gallimore, D. W. Brown, and M. P. Koopmans. 2000. Genetic polymorphism across regions of the three open reading frames of "Norwalk-like viruses." Arch. Virol. 145:223-241.
28. Yoda, T., Y. Terano, Y. Suzuki, K. Yamazaki, I. Oishi, E. Utagawa, A. Shimada, S. Matsuura, M. Nakajima, and T. Shibata. 2000. Characterization of monoclonal antibodies generated against Norwalk virus GII capsid protein expressed in Escherichia coli. Microbiol. Immunol. 44:905-914.