Replacement of previously circulating respiratory syncytial virus subtype B strains with the BA genotype in South Africa

Journal of Virology

Volumn 85, Issue 17, 2011, Pages 8789-8797

  van Niekerk, Stephanie ^a   Venter, Marietjie ^a,b  

^a UNIVERSITY OF PRETORIA   (South Africa)

^b National Institute for Communicable Disease   (South Africa)

Author keywords

[No Author keywords available]

Indexed keywords

GUANINE NUCLEOTIDE BINDING PROTEIN;

AMINO ACID SEQUENCE; ARTICLE; BACTERIAL STRAIN; BRONCHIOLITIS; EPIDEMIC; GENE DELETION; GENE DUPLICATION; GENETIC VARIABILITY; GENOTYPE; HERD IMMUNITY; HUMAN; NUCLEOTIDE SEQUENCE; PNEUMONIA; PREVALENCE; PRIORITY JOURNAL; RESPIRATORY SYNCYTIAL PNEUMOVIRUS; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; SOUTH AFRICA; VIRUS ISOLATION; VIRUS STRAIN;

CLUSTER ANALYSIS; EVOLUTION, MOLECULAR; GENETIC VARIATION; GENOTYPE; HUMANS; INFANT; MOLECULAR EPIDEMIOLOGY; MOLECULAR SEQUENCE DATA; PHYLOGENY; RESPIRATORY SYNCYTIAL VIRUS INFECTIONS; RESPIRATORY SYNCYTIAL VIRUSES; RNA, VIRAL; SEQUENCE ANALYSIS, DNA; SOUTH AFRICA;

RESPIRATORY SYNCYTIAL VIRUS;

EID: 80052282838     PISSN: 0022538X     EISSN: 10985514     Source Type: Journal    
DOI: 10.1128/JVI.02623-10     Document Type: Article

References (48)

1. Agoti, C. N., et al. 2010. Intrapatient variation of the respiratory syncytial virus attachment protein gene. J. Virol. 84:10425-10428.
2. Anderson, L. J., et al. 1985. Antigenic characterization of respiratory syncytial virus strains with monoclonal antibodies. J. Infect. Dis. 151:626-633.
3. Boeck, K. D. 1996. Respiratory syncytial virus bronchiolitis: clinical aspects and epidemiology. Monaldi Arch. Chest Dis. 51:210-213.
4. Botosso, V. F., et al. 2009. Positive selection results in frequent reversible amino acid replacements in the G protein gene of human respiratory syncytial virus. PLoS Pathog. 5:e1000254.
5. Cane, P. A. 2001. Molecular epidemiology of respiratory syncytial virus. Rev.Med. Virol. 11:103-116.
6. Collins, P. L., and J. E. Crowe, Jr. 2007. Respiratory syncytial virus and metapneumovirus, p. 1601-1646. In D. M. Knipe and P. M. Howley (ed.), Fields virology, 5th ed., vol. 2. Lippincott Williams and Wilkins, Philadelphia, PA.
7. Collins, P. L., and B. R. Murphy. 2002. Respiratory syncytial virus: reverse genetics and vaccine strategies. Virology 296:204-211.
8. Crowe, J. E., Jr. 2001. Respiratory syncytial virus vaccine development. Vaccine 20(Suppl. 1):S32-S37.
9. Drummond, A. J., and A. Rambaut. 2007. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol. Biol. 7:214.
10. Falsey, A. R., P. A. Hennessey, M. A. Formica, C. Cox, and E. E. Walsh. 2005. Respiratory syncytial virus infection in elderly and high-risk adults. N. Engl. J. Med. 352:1749-1759.
11. Garcia, O., et al. 1994. Evolutionary pattern of human respiratory syncytial virus (subgroup A): cocirculating lineages and correlation of genetic and antigenic changes in the G glycoprotein. J. Virol. 68:5448-5459.
12. Guindon, S., F. Lethiec, P. Duroux, and O. Gascuel. 2005. PHYML Online-a web server for fast maximum likelihood-based phylogenetic inference. Nucleic Acids Res. 33:W557-W559.
13. Hall, T. A. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp. Ser. 41:95-98.
14. Jenkins, G. M., A. Rambaut, O. G. Pybus, and E. C. Holmes. 2002. Rates of molecular evolution in RNA viruses: a quantitative phylogenetic analysis. J. Mol. Evol. 54:156-165.
15. Johnson, P. R., M. K. Spriggs, R. A. Olmsted, and P. L. Collins. 1987. The G glycoprotein of human respiratory syncytial viruses of subgroups A and B: extensive sequence divergence between antigenically related proteins. Proc. Natl. Acad. Sci. U. S. A. 84:5625-5629.
16. Kuroiwa, Y., et al. 2005. Aphylogenetic study of human respiratory syncytial viruses group Aand B strains isolated in two cities in Japan from 1980-2002. J. Med. Virol. 76:241-247.
17. Lassauniére, R., T. Kresfelder, and M. Venter. 2010. A novel multiplex real-time RT-PCR assay with FRET hybridization probes for the detection and quantification of 13 traditional and newly identified respiratory viruses. J. Virol. Methods 165:254-260.
18. Martinez, I., et al. 1999. Evolutionary pattern of the G glycoprotein of human respiratory syncytial viruses from antigenic group B: the use of alternative termination codons and lineage diversification. J. Gen. Virol. 80:125-130.
19. Melero, J. A., B. Garcia-Barreno, I. Martinez, C. R. Pringle, and P. A. Cane. 1997. Antigenic structure, evolution and immunobiology of human respiratory syncytial virus attachment (G) protein. J. Gen. Virol. 78(Pt. 10):2411-2418.
20. Murata, Y. 2009. Respiratory syncytial virus vaccine development. Clin. Lab.Med. 29:725-739.
21. Nagai, K., H. Kamasaki, Y. Kuroiwa, L. Okita, and H. Tsutsumi. 2004. Nosocomial outbreak of respiratory syncytial virus subgroup B variants with the 60 nucleotides-duplicated G protein gene. J. Med. Virol. 74:161-165.
22. Nei, M., and T. Gojobori. 1986. Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol. Biol.Evol. 3:418-426.
23. Nokes, D. J., et al. 2008. Respiratory syncytial virus infection and disease in infants and young children observed from birth in Kilifi District, Kenya. Clin.Infect. Dis. 46:50-57.
24. Peret, T. C., et al. 2000. Circulation patterns of group A and B human respiratory syncytial virus genotypes in 5 communities in North America. J.Infect. Dis. 181:1891-1896.
25. Peret, T. C., C. B. Hall, K. C. Schnabel, J. A. Golub, and L. J. Anderson. 1998. Circulation patterns of genetically distinct group A and B strains of human respiratory syncytial virus in a community. J. Gen. Virol. 79:2221-2229.
26. Riccetto, A. G., et al. 2009. Genotypes and clinical data of respiratory syncytial virus and metapneumovirus in Brazilian infants: a new perspective. Braz. J. Infect. Dis. 13:35-39.
27. Sato, M., et al. 2005. Molecular epidemiology of respiratory syncytial virus infections among children with acute respiratory symptoms in a community over three seasons. J. Clin. Microbiol. 43:36-40.
28. Scott, P., et al. 2004. Molecular epidemiology of respiratory syncytial virus in Kilifi district, Kenya. J. Clin. Microbiol. 74:344-354.
29. Shay, D. K., R. C. Holman, G. E. Roosevelt, M. J. Clarke, and L. J. Anderson. 2001. Bronchiolitis-associated mortality and estimates of respiratory syncytial virus-associated deaths among US children, 1979-1997. J. Infect. Dis. 183:16-22.
30. Shobugawa, Y., et al. 2009. Emerging genotypes of human respiratory syn-cytial virus subgroup Aamong patients in Japan. J. Clin. Microbiol. 47:24752482.
31. Sullender, W. M. 2000. Respiratory syncytial virus genetic and antigenic diversity. Clin. Microbiol. Rev. 13:1-15.
32. Sullender, W. M., L. Sun, and L. J. Anderson. 1993. Analysis of respiratory syncytial virus genetic variability with amplified cDNAs. J. Clin. Microbiol. 31:1224-1231.
33. Sullender, W. M., and G. W. Wertz. 1991. Synthetic oligonucleotide probes differentiate respiratory syncytial virus subgroups in a nucleic acid hybridization assay. J. Clin. Microbiol. 29:1255-1257.
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.
35. Thompson, J. D., T. J. Gibson, F. Plewniak, F. Jeanmougin, and D. G. Higgins. 1997. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 25:4876-4882.
36. Trento, A., et al. 2003. Major changes in the G protein of human respiratory syncytial virus isolates introduced by a duplication of 60 nucleotides. J. Gen.Virol. 84:3115-3120.
37. Trento, A., et al. 2006. Natural history of human respiratory syncytial virus inferred from phylogenetic analysis of the attachment (G) glycoprotein with a 60-nucleotide duplication. J. Virol. 80:975-984.
38. Venter, M., M. Collinson, and B. D. Schoub. 2002. Molecular epidemiolog-ical analysis of community circulating respiratory syncytial virus in rural South Africa: comparison of viruses and genotypes responsible for different disease manifestations. J. Med. Virol. 68:452-461.
39. Venter, M., S. A. Madhi, C. T. Tiemessen, and B. D. Schoub. 2001. Genetic diversity and molecular epidemiology of respiratory syncytial virus over four consecutive seasons in South Africa: identification of new subgroup A and B genotypes. J. Gen. Virol. 82:2117-2124.
40. Visser, A., S. Delport, and M. Venter. 2008. Molecular epidemiological analysis of a nosocomial outbreak of respiratory syncytial virus associated pneumonia in a kangaroo mother care unit in South Africa. J. Med. Virol. 80:724-732.
41. Welliver, R. C. 2003. Review of epidemiology and clinical risk factors for severe respiratory syncytial virus (RSV) infection. J. Pediatr. 143:S112-S117.
42. Wertz, G. W., et al. 1985. Nucleotide sequence of the G protein gene of human respiratory syncytial virus reveals an unusual type of viral membrane protein. Proc. Natl. Acad. Sci. U. S. A. 82:4075-4079.
43. Wertz, G. W., and R. M. Moudy. 2004. Antigenic and genetic variation in human respiratory syncytial virus. Pediatr. Infect. Dis. J. 23:S19-S24.
44. WHO Department of Vaccines and Biologicals. 2001. Report of a workshop on the epidemiology of respiratory syncytial virus (RSV) in developing countries, Johannesburg, South Africa, 30 November-1 December 2000. Document V&B/VAM/SCEFR/00.01. WHO, Geneva, Switzerland.
45. Woelk, C. H., and E. C. Holmes. 2001. Variable immune-driven natural selection in the attachment (G) glycoprotein of respiratory syncytial virus (RSV). J. Mol. Evol. 52:182-192.
46. Zlateva, K. T., P. Lemey, E. Moes, A. M. Vandamme, and M. Van Ranst. 2005. Genetic variability and molecular evolution of the human respiratory syncytial virus subgroup B attachment G protein. J. Virol. 79:9157-9167.
47. Zlateva, K. T., P. Lemey, A. M. Vandamme, and M. Van Ranst. 2004. Molecular evolution and circulation patterns of human respiratory syncytial virus subgroup A: positively selected sites in the attachment G glycoprotein. J. Virol. 78:4675-4683.
48. Zlateva, K. T., L. Vijgen, N. Dekeersmaeker, C. Naranjo, and M. Van Ranst. 2007. Subgroup prevalence and genotype circulation patterns of human respiratorysyncytial virus inBelgiumduring ten successive epidemic seasons. J. Clin. Microbiol. 45:3022-3030.