Comparative analysis of genome sequences of three isolates of Orf virus reveals unexpected sequence variation

Virus Research

Volumn 116, Issue 1-2, 2006, Pages 146-158

  Mercer, Andrew A ^a   Ueda, Norihito ^a   Friederichs, Sonja Maria ^b   Hofmann, Kay ^c   Fraser, Kate M ^a   Bateman, Trudie ^a   Fleming, Stephen B ^a  

^a UNIVERSITY OF OTAGO   (New Zealand)

^b BAYER PHARMA AG   (Germany)

^c Bioinformatics Group   (Germany)

Author keywords

G + C content; Gene variation; Orf virus; Poxvirus

Indexed keywords

AMINO ACID SEQUENCE; ARTICLE; CHORDOPOXVIRINAE; CONTROLLED STUDY; DATA ANALYSIS; GENE IDENTIFICATION; GENE SEQUENCE; GENETIC VARIABILITY; GENOME ANALYSIS; MOLECULAR RECOGNITION; NONHUMAN; NUCLEOTIDE SEQUENCE; PARAPOXVIRUS; POXVIRUS; PREDICTION; PRIORITY JOURNAL; SPECIES DIFFERENCE; STRAIN DIFFERENCE; VIRAL GENETICS; VIRUS GENOME; VIRUS ISOLATION; VIRUS STRAIN;

BASE COMPOSITION; BASE SEQUENCE; DNA, VIRAL; GENE ORDER; GENOME, VIRAL; MOLECULAR SEQUENCE DATA; ORF VIRUS; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY, AMINO ACID; SYNTENY; VARIATION (GENETICS);

CHORDOPOXVIRINAE; ORF VIRUS; PARAPOXVIRUS; POXVIRIDAE;

EID: 32344436213     PISSN: 01681702     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.virusres.2005.09.011     Document Type: Article

References (40)

1. C.L. Afonso, E.R. Tulman, Z. Lu, L. Zsak, F.A. Osorio, C. Balinsky, G.F. Kutish, and D.L. Rock The genome of swinepox virus J. Virol. 76 2 2002 783 790
2. G. Antoine, F. Scheiflinger, F. Dorner, and F.G. Falkner The complete genomic sequence of the modified vaccinia Ankara strain: comparison with other orthopoxviruses Virology 244 2 1998 365 396
3. C. Cameron, S. Hota-Mitchell, L. Chen, J. Barrett, J.X. Cao, C. Macaulay, D. Willer, D. Evans, and G. McFadden The complete DNA sequence of myxoma virus Virology 264 2 1999 298 318
4. D. Deane, C.J. McInnes, A. Percival, A. Wood, J. Thomson, A. Lear, J. Gilray, S. Fleming, A. Mercer, and D. Haig Orf virus encodes a novel secreted protein inhibitor of granulocyte-macrophage colony-stimulating factor and interleukin-2 J. Virol. 74 3 2000 1313 1320
5. G. Delhon, E.R. Tulman, C.L. Afonso, Z. Lu, A. de la Concha-Bermejillo, H.D. Lehmkuhl, M.E. Piccone, G.F. Kutish, and D.L. Rock Genomes of the parapoxviruses Orf virus and bovine papular stomatitis virus J. Virol. 78 1 2004 168 177
6. J. Felsenstein PHYLIP: phylogeny inference package (version 3.2) Cladistics 5 1989 164 166
7. S.B. Fleming, D.J. Lyttle, J.T. Sullivan, A.A. Mercer, and A.J. Robinson Genomic analysis of a transposition-deletion variant of orf virus reveals a 3.3 kbp region of non-essential DNA J. Gen. Virol. 76 Pt. 12 1995 2969 2978
8. S.B. Fleming, C.A. McCaughan, A.E. Andrews, A.D. Nash, and A.A. Mercer A homolog of interleukin-10 is encoded by the poxvirus orf virus J. Virol. 71 6 1997 4857 4861
9. S.B. Fleming, D.M. Haig, P. Nettleton, H.W. Reid, C.A. McCaughan, L.M. Wise, and A. Mercer Sequence and functional analysis of a homolog of interleukin-10 encoded by the parapoxvirus orf virus Virus Genes 21 1-2 2000 85 95
10. C. Fogg, S. Lustig, J.C. Whitbeck, R.J. Eisenberg, G.H. Cohen, and B. Moss Protective immunity to vaccinia virus induced by vaccination with multiple recombinant outer membrane proteins of intracellular and extracellular virions J. Virol. 78 19 2004 10230 10237
11. M.C. Galmiche, J. Goenaga, R. Wittek, and L. Rindisbacher Neutralizing and protective antibodies directed against vaccinia virus envelope antigens Virology 254 1 1999 71 80
12. S.J. Goebel, G.P. Johnson, M.E. Perkus, S.W. Davis, J.P. Winslow, and E. Paoletti The complete DNA sequence of vaccinia virus Virology 179 1990 247 266
13. O. Grubisha, and P. Traktman Genetic analysis of the vaccinia virus I6 telomere-binding protein uncovers a key role in genome encapsidation J. Virol. 77 20 2003 10929 10942
14. C. Gubser, S. Hue, P. Kellam, and G.L. Smith Poxvirus genomes: a phylogenetic analysis J. Gen. Virol. 85 1 2004 105 117
15. J. Guo, Z. Zhang, J.F. Edwards, R.W. Ermel, C. Taylor Jr., and A. de la Concha-Bermejillo Characterization of a North American orf virus isolated from a goat with persistent, proliferative dermatitis Virus Res. 93 2 2003 169 179
16. D.M. Haig, and C.J. McInnes Immunity and counter-immunity during infection with the parapoxvirus orf virus Virus Res. 88 1-2 2002 3 16
17. D.M. Haig, and A.A. Mercer Ovine diseases Orf Vet. Res. 29 3-4 1998 311 326
18. D.M. Haig, J. Thomson, C. McInnes, C. McCaughan, W. Imlach, A. Mercer, and S. Fleming Orf virus immuno-modulation and the host immune response Vet. Immunol. Immunopathol. 87 3-4 2002 395 399
19. P.D. Kara, C.L. Afonso, D.B. Wallace, G.F. Kutish, C. Abolnik, Z. Lu, F.T. Vreede, L.C. Taljaard, A. Zsak, G.J. Viljoen, and D.L. Rock Comparative sequence analysis of the South African vaccine strain and two virulent field isolates of Lumpy skin disease virus Arch. Virol. 148 7 2003 1335 1356
20. S.M. Laidlaw, and M.A. Skinner Comparison of the genome sequence of FP9, an attenuated, tissue culture-adapted European strain of Fowlpox virus, with those of virulent American and European viruses J. Gen. Virol. 85 2 2004 305 322
21. H.-J. Lee, K. Essani, and G.L. Smith The genome sequence of yaba-like disease virus, a yatapoxvirus Virology 281 2 2001 170 192
22. A.A. Mercer, and D.M. Haig Parapoxviruses A. Granoff R.G. Webster Encyclopedia of Virology second ed. 1999 Academic Press 1140 1146
23. A.A. Mercer, K. Fraser, G. Barns, and A.J. Robinson The structure and cloning of orf virus DNA Virology 157 1 1987 1 12
24. A.A. Mercer, D.J. Lyttle, E.M. Whelan, S.B. Fleming, and J.T. Sullivan The establishment of a genetic map of orf virus reveals a pattern of genomic organization that is highly conserved among divergent poxviruses Virology 212 2 1995 698 704
25. A.A. Mercer, D.L. Yirrell, E.M. Whelan, P.F. Nettleton, I. Pow, J.A. Gilray, H.W. Reid, and A.J. Robinson A novel strategy for determining protective antigens of the parapoxvirus, orf virus Virology 229 1 1997 193 200
26. A.A. Mercer, L.M. Wise, A. Scagliarini, C.J. McInnes, M. Buttner, H.J. Rziha, C.A. McCaughan, S.B. Fleming, N. Ueda, and P.F. Nettleton Vascular endothelial growth factors encoded by Orf virus show surprising sequence variation but have a conserved, functionally relevant structure J. Gen. Virol. 83 Pt. 11 2002 2845 2855
27. A.A. Mercer, S.B. Fleming, and N. Ueda F-Box-like domains are present in most poxvirus ankyrin repeat proteins Virus Genes 31 2 2005 127 133
28. M. Merchlinsky Mutational analysis of the resolution sequence of vaccinia virus DNA: essential sequence consists of two separate AT-rich regions highly conserved among poxviruses J. Virol. 64 10 1990 5029 5035
29. H. Meyer, G. Sutter, and A. Mayr Mapping of deletions in the genome of the highly attenuated vaccinia virus MVA and their influence on virulence J. Gen. Virol. 72 Pt. 5 1991 1031 1038
30. R.W. Moyer, B. Arif, D.N. Black, D.B. Boyle, R.M. Buller, K.R. Dumbell, J.J. Esposito, G. McFadden, B. Moss, A. Mercer, S. Ropp, D.N. Tripathy, and C. Upton Family Poxviridae M.H.V.V. Regenmortel C.M. Fauquet D.H.L. Bishop E.B. Carstens M.K. Estes S.M. Lemon J. Maniloff M.A. Mayo D.J. McGeoch C.R. Pringle R.B. Wickner Virus Taxonomy 2000 Academic Press New York 137 147
31. D.J. Pulford, A. Gates, S.H. Bridge, J.H. Robinson, and D. Ulaeto Differential efficacy of vaccinia virus envelope proteins administered by DNA immunisation in protection of BALB/c mice from a lethal intranasal poxvirus challenge Vaccine 22 25-26 2004 3358 3366
32. A.J. Robinson, G. Ellis, and T. Balassu The genome of orf virus: restriction endonuclease analysis of viral DNA isolated from lesions of orf in sheep Arch. Virol. 71 1 1982 43 55
33. A.J. Robinson, G. Barns, K. Fraser, E. Carpenter, and A.A. Mercer Conservation and variation in orf virus genomes Virology 157 1987 13 23
34. L.J. Savory, S.A. Stacker, S.B. Fleming, B.E. Niven, and A.A. Mercer Viral vascular endothelial growth factor plays a critical role in orf virus infection J. Virol. 74 22 2000 10699 10706
35. A. Scagliarini, S. Ciulli, M. Battilani, I. Jacoboni, F. Montesi, R. Casadio, and S. Prosperi Characterisation of immunodominant protein encoded by the F1L gene of orf virus strains isolated in Italy Arch. Virol. 147 10 2002 1989 1995
36. B.T. Seet, C.A. McCaughan, T.M. Handel, A. Mercer, C. Brunetti, G. McFadden, and S.B. Fleming Analysis of an orf virus chemokine-binding protein: shifting ligand specificities among a family of poxvirus viroceptors Proc. Natl. Acad. Sci. U.S.A. 100 25 2003 15137 15142
37. T.G. Senkevich, J.J. Bugert, J.R. Sisler, E.V. Koonin, G. Darai, and B. Moss Genome sequence of a human tumorigenic poxvirus: prediction of specific host response-evasion genes Science 273 1996 813 816
38. J.D. Thompson, D.G. Higgins, and T.J. Gibson CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice Nucleic Acids Res. 22 22 1994 4673 4680
39. M.K. Tikkanen, C.J. McInnes, A.A. Mercer, M. Buttner, J. Tuimala, V. Hirvela-Koski, E. Neuvonen, and A. Huovilainen Recent isolates of parapoxvirus of Finnish reindeer (Rangifer tarandus tarandus) are closely related to bovine pseudocowpox virus J. Gen. Virol. 85 6 2004 1413 1418
40. C. Upton, S. Slack, A.L. Hunter, A. Ehlers, and R.L. Roper Poxvirus orthologous clusters: toward defining the minimum essential poxvirus genome J. Virol. 77 13 2003 7590 7600