Consensus amplification and novel multiplex sequencing method for S segment species identification of 47 viruses of the Orthobunyavirus, Phlebovirus, and Nairovirus genera of the family Bunyaviridae

Journal of Clinical Microbiology

Volumn 47, Issue 8, 2009, Pages 2398-2404

  Lambert, Amy J ^a   Lanciotti, Robert S ^a  

^a NATIONAL CENTER FOR EMERGING AND ZOONOTIC INFECTIOUS DISEASES   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; RNA;

ARTHROPOD; ARTICLE; BUNYAVIRUS; CONSENSUS; DILUTION; GENE AMPLIFICATION; GENE SEQUENCE; GENETICS; GENOMICS; GEOGRAPHIC ORIGIN; HOST; NAIRO VIRUS; NONHUMAN; NUCLEOTIDE SEQUENCE; ORTHOBUNYAVIRUS; PATHOGENESIS; PHLEBOVIRUS; PRIORITY JOURNAL; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RNA EXTRACTION; SENSITIVITY AND SPECIFICITY; VIRUS GENE; VIRUS IDENTIFICATION;

BUNYAVIRIDAE INFECTIONS; DNA PRIMERS; HUMANS; MOLECULAR SEQUENCE DATA; NAIROVIRUS; ORTHOBUNYAVIRUS; PHLEBOVIRUS; POLYMERASE CHAIN REACTION; RNA, VIRAL; SENSITIVITY AND SPECIFICITY; SEQUENCE ANALYSIS, DNA;

ARBOVIRUS; ARTHROPODA; BUNYAVIRIDAE; NAIROVIRUS; ORTHOBUNYAVIRUS; PHLEBOVIRUS;

EID: 68549139968     PISSN: 00951137     EISSN: None     Source Type: Journal    
DOI: 10.1128/JCM.00182-09     Document Type: Article

References (31)

1. Altschul, S. F., W. Gish, W. Miller, E. W. Myers, and D. J. Lipman. 1990. Basic local alignment search tool. J. Mol. Biol. 215:403-410.
2. Barrett, A. D., and R. E. Shope. 2005. Bunyaviridae, p. 1025-1058. In B. Mahy and V. Ter Meulen (ed.), Topley and Wilson's microbiology and microbial infections, 10th ed. ASM Press, Washington, DC.
3. Bird, B. H., J. W. Githinji, J. M. Macharia, J. L. Kasiiti, R. M. Muriithi, S. G. Gacheru, J. O. Musaa, J. S. Towner, S. A. Reeder, J. B. Oliver, T. L. Stevens, B. R. Erickson, L. T. Morgan, M. L. Khristova, A. L. Hartman, J. A. Comer, P. E. Rollin, T. G. Ksiazek, and S. T. Nichol. 2008. Multiple virus lineages sharing recent common ancestry were associated with a large Rift Valley fever outbreak among livestock in Kenya during 2006-2007. J. Virol. 82:11152-11166.
4. Bowen, M. D., S. G. Trappier, A. J. Sanchez, R. F. Meyer, C. S. Goldsmith, S. R. Zaki, L. M. Dunster, C. J. Peters, T. J. Ksiazek, and S. T. Nichol. 2001. A reassortant bunyavirus isolated from acute hemorrhagic fever cases in Kenya and Somalia. Virology 291:185-190.
5. Briese, T., B. Bird, V. Kapoor, S. T. Nichol, and W. I. Lipkin. 2006. Batai and Ngari viruses: M segment reassortment and association with severe febrile disease outbreaks in East Africa. J. Virol. 80:5627-5630.
6. Calisher, C. H., and N. Karabatsos. 1988. Arbovirus serogroups: definition and geographic distribution, p. 19-57. In T. P. Monath (ed.), The arboviruses: epidemiology and ecology. CRC Press, Boca Raton, FL.
7. Campbell, G. L., J. D. Mataczynski, E. S. Reisdorf, J. W. Powell, D. A. Martin, A. J. Lambert, T. E. Haupt, J. P. Davis, and R. S. Lanciotti. 2006. Second human case of Cache Valley virus disease. Emerg. Infect. Dis. 12: 854-856.
8. Crabtree, M., R. Sang, J. Lutomiah, J. Richardson, and B. Miller. Arbovirus surveillance of mosquitoes collected at sites of active Rift Valley fever virus transmission: Kenya, 2006-2007. J. Med. Entomol., in press.
9. Elliott, R. M., M. Bouloy, C. H. Calisher, R. Goldbach, J. T. Moyer, S. T. Nichol, R. Pettersson, A. Plyusnin, and C. S. Schmaljohn. 2000. Family Bunyaviridae, p. 599-621. In M. H. V. van Regenmortel, C. M. Fauguet, and D. H. L. Bishop (ed.), Virus taxonomy: seventh report of the International Committee on Taxonomy of Viruses. Academic Press, San Diego, CA.
10. Gerrard, S. R., L. Li, A. D. Barrett, and S. T. Nichol. 2004. Ngari virus is a Bunyamwera virus reassortant that can be associated with large outbreaks of hemorrhagic fever in Africa. J. Virol. 78:8922-8926.
11. Honig, J., J. Osborne, and S. Nichol. 2004. The high genetic variation of viruses of the genus Nairovirus reflects the diversity of their predominant tick hosts. Virology 318:10-16.
12. Johnson, B. W., B. J. Russell, and R. S. Lanciotti. 2005. Serotype-specific detection of dengue viruses in a fourplex real-time reverse transcriptase PCR assay. J. Clin. Microbiol. 43:4977-4983.
13. Kuno, G., C. J. Mitchell, G.-J. J. Chang, and G. C. Smith. 1996. Detecting bunyaviruses of the Bunyamwera and California serogroups by a PCR technique. J. Clin. Microbiol. 34:1184-1188.
14. Lambert, A. J., O. Kosoy, J. O. Velez, B. J. Russell, and R. S. Lanciotti. 2007. Detection of Colorado tick fever viral RNA in acute human serum samples by a quantitative real-time RT-PCR assay. J. Virol. Methods 140:43-48.
15. Lambert, A. J., and R. S. Lanciotti. 2008. Molecular characterization of medically important viruses of the genus Orthobunyavirus. J. Gen. Virol. 89:2580-2585.
16. Lambert, A. J., D. A. Martin, and R. S. Lanciotti. 2003. Detection of North American eastern and western equine encephalitis viruses by nucleic acid amplification assays. J. Clin. Microbiol. 41:379-385.
17. Lambert, A. J., R. S. Nasci, B. C. Cropp, D. A. Martin, B. C. Rose, B. J. Russell, and R. S. Lanciotti. 2005. Nucleic acid amplification assays for detection of La Crosse virus RNA. J. Clin. Microbiol. 43:1885-1889.
18. Lanciotti, R. S., and A. J. Kerst. 2001. Nucleic acid sequence based amplification assays for rapid detection of West Nile and St. Louis encephalitis viruses. J. Clin. Microbiol. 39:4506-4513.
19. Lanciotti, R. S., A. J. Kerst, R. S. Nasci, M. S. Godsey, C. J. Mitchell, H. M. Savage, N. Komar, N. A. Panella, B. C. Allen, K. E. Volpe, B. S. Davis, and J. T. Roehrig. 2000. Rapid detection of West Nile virus from human clinical specimens, field collected mosquitoes, and avian samples by a TaqMan reverse transcriptase-PCR assay. J. Clin. Microbiol. 38:4066-4071.
20. Lanciotti, R. S., O. L. Kosoy, J. J. Laven, A. J. Panella, J. O. Velez, A. J. Lambert, and G. L. Campbell. 2007. Chikungunya virus in US travelers returning from India, 2006. Emerg. Infect. Dis. 13:764-767.
21. Lanciotti, R. S., O. L. Kosoy, J. J. Laven, J. O. Velez, A. J. Lambert, A. J. Johnson, S. M. Stanfield, and M. R. Duffy. 2008. Genetic and serologic properties of Zika virus associated with an epidemic, Yap State, Micronesia, 2007. Emerg. Infect. Dis. 14:1232-1239.
22. Lanciotti, R. S., J. T. Roehrig, V. Deubel, J. Smith, M. Parker, K. Steele, B. Crise, K. E. Volpe, M. B. Crabtree, J. H. Scherret, R. A. Hall, J. S. Mac-Kenzie, C. B. Cropp, B. Panigrahy, E. Ostlund, B. Schmitt, M. Malkinson, C. Banet, J. Weissman, N. Komar, H. M. Savage, W. Stone, T. McNamara, and D. J. Gubler. 1999. Origin of the West Nile virus responsible for an outbreak of encephalitis in the northeastern United States. Science 286: 2333-2337.
23. Lanciotti, R. S., and T. F. Tsai. 2007. Arboviruses, p. 1486-1501. In P. R. Murray, E. J. Baron, J. H. Jorgensen, M. L. Landry, and M. F. Pfaller (ed.), Manual of clinical microbiology. ASM Press, Washington, DC.
24. Lu, Z., X.-J. Lu, S.-H. Fu, S. Zhang, Z.-X. Li, X. Yao, Y. Feng, A. Lambert, D. Ni, F. Wang, S. Tong, R. Nasci, Y. Feng, Q. Dong, Y. Zhai, X. Gao, H. Wang, Q. Tang, and G. Liang. 2009. Tahyna virus and human infection, China. Emerg. Infect. Dis. 15:306-309.
25. Nichol, S. T. 2001. Bunyaviruses, p. 1603-1633. In B. N. Fields, D. M. Knipe, P. M. Howley, and D. E. Griffin (ed.), Fields virology, 4th ed. Lippincott Williams & Wilkins, Philadelphia, PA.
26. Nunes, M. R., A. P. Travassos da Rosa, S. C. Weaver, R. B. Tesh, and P. F. Vasconcelos. 2005. Molecular epidemiology of group C viruses (Bunyaviridae, Orthobunyavirus) isolated in the Americas. J. Virol. 79:10561-10570.
27. Sánchez-Seco, M. P., J. M. Echevarría, L. Hernández, D. Estévez, J. M. Navarro-Marí, and A. Tenorio. 2003. Detection and identification of Toscana and other phleboviruses by RT-nested-PCR assays with degenerated primers. J. Med. Virol. 71:140-149.
28. Schmaljohn, C. S., and J. W. Hooper. 2001. Bunyaviridae: the viruses and their replication, p. 1581-1602. In B. N. Fields, D. M. Knipe, P. M. Howley, and D. E. Griffin (ed.), Fields virology, 4th ed. Lippincott Williams & Wilkins, Philadelphia, PA.
29. Schmaljohn, C. S., and S. T. Nichol. 2007. Bunyaviridae, p. 1741-1778. In B. N. Fields, D. M. Knipe, P. M. Howley, and D. E. Griffin (ed.), Fields virology, 5th ed. Lippincott Williams & Wilkins, Philadelphia, PA.
30. Shope, R. E., and O. R. Causey. 1962. Further studies on the serological relationships of group C arthropod-borne viruses and the application of these relationships to rapid identification of types. Am. J. Trop. Med. 26: 189-208.
31. Vorou, R., I. N. Pierroutsakos, and H. C. Maltezou. 2007. Crimean-Congo hemorrhagic fever. Curr. Opin. Infect. Dis. 20:495-500.