Genomic sequence of a clonal isolate of the vaccinia virus Lister strain employed for smallpox vaccination in France and its comparison to other orthopoxviruses

Journal of General Virology

Volumn 88, Issue 7, 2007, Pages 1906-1916

  Garcel, Aude ^a   Crance, Jean Marc ^a   Drillien, Robert ^b,c   Garin, Daniel ^a   Favier, Anne Laure ^a  

^a CENTRE DE RECHERCHES   (France)

^b INSTITUT DE GÉNÉTIQUE ET DE BIOLOGIE MOLÉCULAIRE ET CELLULAIRE   (France)

^c UNIVERSITÉ DE STRASBOURG   (France)

Author keywords

[No Author keywords available]

Indexed keywords

SMALLPOX VACCINE;

ARTICLE; CONTROLLED STUDY; DRUG EFFICACY; DRUG SAFETY; FRANCE; GENE LOCATION; GENE SEQUENCE; GENETIC HETEROGENEITY; GENETIC VARIABILITY; GENOME ANALYSIS; HUMAN; HUMAN CELL; IMMUNIZATION; JAPANESE; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; ORTHOPOXVIRUS; PRIORITY JOURNAL; PSEUDOGENE; STRAIN DIFFERENCE; VACCINIA VIRUS; VIRUS GENE; VIRUS ISOLATION; VIRUS STRAIN;

AMINO ACID SEQUENCE; AMINO ACID SUBSTITUTION; ANIMALS; CELL LINE; CERCOPITHECUS AETHIOPS; CHROMOSOME MAPPING; CRICETINAE; FRANCE; GENOME, VIRAL; HUMANS; MOLECULAR SEQUENCE DATA; OPEN READING FRAMES; ORTHOPOXVIRUS; PHYLOGENY; PSEUDOGENES; SMALLPOX VACCINE; SPECIES SPECIFICITY; VACCINIA VIRUS; VERO CELLS; VIRAL PROTEINS;

VACCINIA VIRUS; VARIOLA VIRUS;

EID: 34347341836     PISSN: 00221317     EISSN: None     Source Type: Journal    
DOI: 10.1099/vir.0.82708-0     Document Type: Article

References (66)

1. Afonso, C. L., Tulman, E. R., Lu, Z., Zsak, L., Sandybaev, N. T., Kerembekova, U. Z., Zaitsev, V. L., Kutish, G. F. & Rock, D. L. (2002). The genome of camelpox virus. Virology 295, 1-9.
2. Afonso, C. L., Delhon, G., Tulman, E. R., Lu, Z., Zsak, A., Becerra, V. M., Zsak, L., Kutish, G. F. & Rock, D. L. (2005). Genome of deerpox virus. J Virol 79, 966-977.
3. Alcami, A. & Smith, G. L. (1995). Vaccinia, cowpox, and camelpox viruses encode soluble gamma interferon receptors with novel broad species specificity. J Virol 69, 4633-4639.
4. Alcami, A., Symons, J. A. & Smith, G. L. (2000). The vaccinia virus soluble alpha/beta interferon (IFN) receptor binds to the cell surface and protects cells from the antiviral effects of IFN. J Virol 74, 11230-11239.
5. Alejo, A., Ruiz-Arguello, M. B., Ho, Y., Smith, V. P., Saraiva, M. & Alcami, A. (2006). A chemokine-binding domain in the tumor necrosis factor receptor from variola (smallpox) virus. Proc Natl Acad Sci U S A 103, 5995-6000.
6. Altsehul, S. F., Gish, W., Miller, W., Myers, E W. & Lipman, D. J. (1990). Basic local alignment search tool. J Mol Biol 215, 403-410.
7. Amegadzie, B. Y., Ahn, B. Y. & Moss, B. (1992). Characterization of a 7-kilodalton subunit of vaccinia virus DNA-dependent RNA polymerase with structural similarities to the smallest subunit of eukaryotic RNA polymerase II. J Virol 66, 3003-3010.
8. Antoine, G., Scheiflinger, F., Dorner, F. & Falkner, F. G. (1998). The complete genomic sequence of the modified vaccinia Ankara strain: comparison with other orthopoxviruses. Virology 244, 365-396.
9. Breman, J. G. & Arita, I. (1980). The confirmation and maintenance of smallpox eradication. N Engl J Med 303, 1263-1273.
10. Chalifa-Caspi, V., Shmueli, O., Benjamin-Rodrig, H., Rosen, N., Shmoish, M., Yanai, I., Ophir, R., Kats, P., Safran, M. & Lancet, D. (2003). GeneAnnot: interfacing GeneCards with high-throughput gene expression compendia. Brief Bioinform 4, 349-360.
11. Chalifa-Caspi, V., Yanai, I., Ophir, R., Rosen, N., Shmoish, M., Benjamin-Rodrig, H., Shklar, M., Stein, T. I., Shmueli, O. & other authors (2004). GeneAnnot: comprehensive two-way linking between oligonucleotide array probesets and GeneCards genes. Bioinformatics 20, 1457-1458.
12. Chen, N., Danila, M. I., Feng, Z., Buller, R. M., Wang, C., Han, X., Lefkowitz, E. J. & Upton, C. (2003). The genomic sequence of ectromelia virus, the causative agent of mousepox. Virology 317, 165-186.
13. Chung, C. S., Chen, C. H., Ho, M. Y., Huang, C. Y., Liao, C. L. & Chang, W. (2006). Vaccinia virus proteome: identification of proteins in vaccinia virus intracellular mature virion particles. J Virol 80, 2127-2140.
14. de Carlos, A. & Paez, E. (1991). Isolation and characterization of mutants of vaccinia virus with a modified 94-kDa inclusion protein. Virology 185, 768-778.
15. DiPerna, G., Stack, J., Bowie, A. G., Boyd, A., Kotwal, G., Zhang, Z., Arvikar, S., Latz, E., Fitzgerald, K. A. & Marshall, W. L. (2004). Poxvirus protein N1L targets the I-kappaB kinase complex, inhibits signaling to NF-κB by the tumor necrosis factor superfamily of receptors, and inhibits NF-κB and IRF3 signaling by toll-like receptors. J Biol Chem 279, 36570-36578.
16. Fenner, F. (1982). A successful eradication campaign. Global eradication of smallpox. Rev Infect Dis 4, 916-930.
17. Galtier, N., Gouy, M. & Gautier, C. (1996). SEAVIEW and PHYLO_WIN: two graphic tools for sequence alignment and molecular phylogeny. Comput Appl Biosci 12, 543-548.
18. Geshelin, P. & Berns, K. I. (1974). Characterization and localization of the naturally occurring cross-links in vaccinia virus DNA. J Mol Biol 88, 785-796.
19. Goebel, S. J., Johnson, G. P., Perkus, M. E., Davis, S. W., Winslow, J. P. & Paoletti, E. (1990). The complete DNA sequence of vaccinia virus. Virology 179, 247-266, 517-563.
20. Grosenbach, D. W., Hansen, S. G. & Hruby, D. E. (2000). Identification and analysis of vaccinia virus palmitylproteins. Virology 275, 193-206.
21. Gubser, C. & Smith, G. L. (2002). The sequence of camelpox virus shows it is most closely related to variola virus, the cause of smallpox. J Gen Virol 83, 855-872.
22. Gubser, C., Hue, S., Kellam, P. & Smith, G. L. (2004). Poxvirus genomes: a phylogenetic analysis. J Gen Virol 85, 105-117.
23. Gubser, C., Bergamaschi, D., Hollinshead, M., Lu, X., van Kuppeveld, F. J. & Smith, G. L. (2007). A new inhibitor of apoptosis from vaccinia virus and eukaryotes. PloS Pathog 3, e17.
24. Henderson, D. A. (1999a). The looming threat of bioterrorism. Science 283, 1279-1282.
25. Henderson, D. A. (1999b). Weapons for the future. Lancet 354, S1V64.
26. Herrero-Martinez, E., Roberts, K. L., Hollinshead, M. & Smith, G. L. (2005). Vaccinia virus intracellular enveloped virions move to the cell periphery on microtubules in the absence of the A36R protein. J Gen Virol 86, 2961-2968.
27. Huang, J., Huang, Q, Zhou, X., Shen, M. M., Yen, A., Yu, S. X., Dong, G., Qu, K., Huang, P. & other authors (2004). The poxvirus p28 virulence factor Is an E3 Ubiquitin ligase. J Biol Chem 279, 54110-54116.
28. Kahmann, J. D., Wecking, D. A., Putter, V., Lowenhaupt, K., Kim, Y. G., Schmieder, P., Oschkinat, H., Rich, A. & Schade, M. (2004). The solution structure of the N-terminal domain of E3L shows a tyrosine conformation that may explain its reduced affinity to Z-DNA in vitro. Proc Natl Acad Sci U S A 101, 2712-2717.
29. Kettle, S., Blake, N. W., Law, K. M. & Smith, G. L. (1995). Vaccinia virus serpins B13R (SPI-2) and B22R (SPI-1) encode M(r) 38.5 and 40K, intracellular polypeptides that do not affect virus virulence in a murine intranasal model. Virology 206, 136-147.
30. Kettle, S., Alcami, A., Khanna, A., Ehret, R., Jassoy, C. & Smith, G. L. (1997). Vaccinia virus serpin B13R (SPI-2) inhibits interleukin-1β-converting enzyme and protects virus-infected cells from TNF- and Fas-mediated apoptosis, but does not prevent IL-1β-induced fever. J Gen Virol 78, 677-585.
31. Kretzschmar, M., Wallinga, J., Yeunis, P., Xing, S. & Mikolajczyk, R. (2006). Frequency of adverse events after vaccination with different vaccinia strains. PLoS Med 3, e272.
32. Langland, J. O. & Jacobs, B. L. (2002). The role of the PKR-inhibitory genes, E3L and K3L, in determining vaccinia virus host range. Virology 299, 133-141.
33. Lee, L. G., Spurgeon, S. L., Heiner, C. R., Benson, S. C., Rosenblum, B. B., Menchen, S. M., Graham, R. J., Constantinescu, A., Upadhya, K. G. & Cassel, J. M. (1997). New energy transfer dyes for DNA sequencing. Nucleic Acids Res 25, 2816-2822.
34. Lee, H. J., Essani, K. & Smith, G. L. (2001). The genome sequence of Yaba-like disease virus, a yatapoxvirus. Virology 281, 170-192.
35. Levy-Bruhl, D. & Guerin, N. (2001). The use of smallpox virus as a biological weapon: the vaccination situation in France. Euro Surveill 6, 171-178.
36. Li, G., Chen, N., Roper, R. L., Feng, Z., Hunter, A., Danila, M., Lefkowitz, E. J., Buller, R. M. & Upton, C. (2005). Complete coding sequences of the rabbitpox virus genome. J Gen Virol 86, 2969-2977.
37. Li, G., Chen, N., Feng, Z., Bullet, R. M., Osborne, J., Harms, T., Damon, I., Upton, C. & Esteban, D. J. (2006). Genomic sequence and analysis of a vaccinia virus isolate from a patient with a smallpox vaccine-related complication. Virol J 3, 88.
38. Lin, Y. Z., Ke, X. H. & Tam, J. P. (1990). Growth inhibition by vaccinia virus growth factor. J Biol Chem 265, 18884-18890.
39. Mahalingam, S., Damon, I. K. & Lidbury, B. A. (2004). 25 years since the eradication of smallpox: why poxvirus research is still relevant. Trends Immunol 25, 636-639.
40. Massung, R. F., Liu, L. I., Qi, J., Knight, J. C., Yuran, T. E., Kerlavage, A. R., Parsons, J. M., Venter, J. C. & Esposito, J. J. (1994). Analysis of the complete genome of smallpox variola major virus strain Bangladesh-1975. Virology 201, 215-240.
41. McCoy, S. L., Kurtz, S. E., Macarthur, C. J., Trune, D. R. & Hefeneider, S. H. (2005). Identification of a peptide derived from vaccinia virus A52R protein that inhibits cytokine secretion in response to TLR-dependent signaling and reduces in vivo bacterial-induced inflammation. J Immunol 174, 3006-3014.
42. McFadden, G., Graham, K., Ellison, K., Barry, M., Macen, J., Schreiber, M., Mossman, K., Nash, P., Lalani, A. & Everett, H. (1995). Interruption of cytokine networks by poxviruses: lessons from myxoma virus. J Leukoc Biol 57, 731-738.
43. Meyer, H. & Rziha, H. J. (1993). Characterization of the gene encoding the A-type inclusion protein of camelpox virus and sequence comparison with other orthopoxviruses. J Gen Virol 74, 1679-1684.
44. Mohamed, M. R., Latner, D. R., Condit, R. C. & Niles, E. G. (2001). Interaction between the J3R subunit of vaccinia virus poly(A) polymerase and the H4L subunit of the viral RNA polymerase. Virology 280, 143-152.
45. Morikawa, S., Sakiyama, T., Hasegawa, H., Saijo, M., Maeda, A., Kurane, I., Maeno, G., Kimura, J., Hirama, C. & other authors (2005). An attenuated LC16m8 smallpox vaccine: analysis of full-genome sequence and induction of immune protection. J Virol 79, 11873-11891.
46. Nash, P., Barrett, J., Cao, J. X., Hota-Mitchell, S., Lalani, A. S., Everett, H., Xu, X. M., Robichaud, J., Hnatiuk, S. & other authors (1999). Immunomodulation by viruses: the myxoma virus story. Immunol Rev 168, 103-120.
47. Niles, E. G. & Christen, L. (1993). Identification of the vaccinia virus mRNA guanyltransferase active site lysine. J Biol Chem 268, 24986-24989.
48. Patel, D. D., Pickup, D. J. & Joklik, W. K. (1986). Isolation of cowpox virus A-type inclusions and characterization of their major protein component. Virology 149, 174-189.
49. Pires de Miranda, M., Reading, P. C., Tscharke, D. C., Murphy, B. J. & Smith, G. L. (2003). The vaccinia virus kelch-like protein C2L affects calcium-independent adhesion to the extracellular matrix and inflammation in a murine intradermal model. J Gen Virol 84, 2459-2471.
50. Reading, P. C. & Smith, G. L. (2003). Vaccinia virus interleukin-18-binding protein promotes virulence by reducing gamma interferon production and natural killer and T-cell activity. J Virol 77, 9960-9968.
51. Reading, P. C., Khanna, A. & Smith, G. L. (2002). Vaccinia virus CrmE encodes a soluble and cell surface tumor necrosis factor receptor that contributes to virus virulence. Virology 292, 285-298.
52. Sanger, F., Nicklen, S. & Coulson, A. R. (1977). DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci U S A 74, 5463-5467.
53. Saraiva, M. & Alcami, A. (2001). CrmE, a novel soluble tumor necrosis factor receptor encoded by poxviruses. J Virol 75, 226-233.
54. Shchelkunov, S. N., Massung, R. F. & Esposito, J. J. (1995). Comparison of the genome DNA sequences of Bangladesh-1975 and India-1967 variola viruses. Virus Res 36, 107-118.
55. Shchelkunov, S. N., Totmenin, A. V., Loparev, V. N., Safronov, P. F., Gutorov, V. V., Chizhikov, V. E., Knight, J. C., Parsons, J. M., Massung, R. F. & Esposito, J. J. (2000). Alastrim smallpox variola minor virus genome DNA sequences. Virology 266, 361-386.
56. Shchelkunov, S. N., Totmenin, A. V., Safronov, P. F., Mikheev, M. V., Gutorov, V. V., Ryazankina, O. I., Petrov, N. A., Babkin, I. V., Uvarova, E. A. & other authors (2002). Analysis of the monkeypox virus genome. Virology 297, 172-194.
57. Smith, V. P., Bryant, N. A. & Alcami, A. (2000). Ectromelia, vaccinia and cowpox viruses encode secreted interleukin-18-binding proteins. J Gen Virol 81, 1223-1230.
58. Sonnhammer, E. L. & Durbin, R. (1995). A dot-matrix program with dynamic threshold control suited for genomic DNA and protein sequence analysis. Gene 167, GC1-GC10.
59. Stack, J., Haga, I. R., Schroder, M., Bartlett, N. W., Maloney, G., Reading, P. C., Fitzgerald, K. A., Smith, G. L. & Bowie, A. G. (2005). Vaccinia virus protein A46R targets multiple Toll-like-interleukin-1 receptor adaptors and contributes to virulence. J Exp Med 201, 1007-1018.
60. Sugimoto, M., Yasuda, A., Miki, K., Morita, M., Suzuki, K., Uchida, N. & Hashizume, S. (1985). Gene structures of low-neurovirulent vaccinia virus LC16m0, LC16m8, and their Lister original (LO) strains. Microbiol Immunol 29, 421-428.
61. Symons, J. A., Tscharke, D. C., Price, N. & Smith, G. L. (2002). A study of the vaccinia virus interferon-gamma receptor and its contribution to virus virulence. J Gen Virol 83, 1953-1964.
62. Tone, M., Thompson, S. A., Tone, Y., Fairchild, P. J. & Waldmann, H. (1997). Regulation of IL-18 (IFN-gamma-inducing factor) gene expression. J Immunol 159, 6156-6163.
63. Tscharke, D. C., Reading, P. C. & Smith, G. L. (2002). Dermal infection with vaccinia virus reveals roles for virus proteins not seen using other inoculation routes. J Gen Virol 83, 1977-1986.
64. Tulman, E. R., Afonso, C. L., Lu, Z., Zsak, L., Kutish, G. F. & Rock, D. L. (2004). The genome of canarypox virus. J Virol 78, 353-366.
65. Tulman, E. R., Delhon, G., Afonso, C. L., Lu, Z., Zsak, L., Sandybaev, N. T., Kerembekova, U. Z., Zaitsev, V. L., Kutish, G, F. & Rock, D. L. (2006). Genome of horsepox virus. J Virol 80, 9244-9258.
66. Yeh, W. W., Moss, B. & Wolffe, E. J. (2000). The vaccinia virus A9L gene encodes a membrane protein required for an early step in virion morphogenesis. J Virol 74, 9701-9711.