1887

Abstract

The complete genome sequence of a single nucleocapsid nucleopolyhedrovirus recently isolated from C (ChchNPV) was determined. The viral genome has a size of 149 622 bp and an overall G+C content of 39·1 mol%. The sequence contains 151 predicted open reading frames (ORFs) with a minimal size of 50 codons. The similarity of these ORFs with those of other completely sequenced baculoviruses was calculated using a newly developed database, named . Phylogenetic analysis of the whole genome confirmed the evolutionary relationship of ChchNPV with group II NPVs, as did the absence of the NPV group I-specific gene. It is the first group II NPV to encode proliferating cell nuclear antigen. Most noteworthy is the presence of two ORFs encoding a class II cyclobutane pyrimidine dimer DNA photolyase. These two ORFs share only 45 % amino acid identity and have different promoter motifs. Twenty-two additional unique baculovirus genes were identified, including a gene encoding a novel putative RING finger protein with a possible homologue in poxviruses.

Loading

Article metrics loading...

/content/journal/jgv/10.1099/vir.0.80964-0
2005-07-01
2020-04-03
Loading full text...

Full text loading...

/deliver/fulltext/jgv/86/7/vir862069.html?itemId=/content/journal/jgv/10.1099/vir.0.80964-0&mimeType=html&fmt=ahah

References

  1. Afonso C. L., Tulman E. R., Lu Z., Oma E., Kutish G. F., Rock D. L. 1999; The genome of Melanoplus sanguinipes entomopoxvirus. J Virol 73:533–552
    [Google Scholar]
  2. Afonso C. L., Tulman E. R., Lu Z., Balinsky C. A., Moser B. A., Becnel J. J., Rock D. L., Kutish G. F. 2001; Genome sequence of a baculovirus pathogenic for Culex nigripalpus . J Virol 75:11157–11165 [CrossRef]
    [Google Scholar]
  3. Ahrens C. H., Russell R. L., Funk C. J., Evans J. T., Harwood S. H., Rohrmann G. F. 1997; The sequence of the Orgyia pseudotsugata multinucleocapsid nuclear polyhedrosis virus genome. Virology 229:381–399 [CrossRef]
    [Google Scholar]
  4. Altschul S. F., Madden T. L., Schaffer A. A., Zhang J., Zhang Z., Miller W., Lipman D. J. 1997; Gapped blast and psi-blast: a new generation of protein database search programs. Nucleic Acids Res 25:3389–3402 [CrossRef]
    [Google Scholar]
  5. Ayres M. D., Howard S. C., Kuzio J., Lopez-Ferber M., Possee R. D. 1994; The complete DNA sequence of Autographa californica nuclear polyhedrosis virus. Virology 202:586–605 [CrossRef]
    [Google Scholar]
  6. Bawden A. L., Glassberg K. J., Diggans J., Shaw R., Farmerie W., Moyer R. W. 2000; Complete genomic sequence of the Amsacta moorei entomopoxvirus: analysis and comparison with other poxviruses. Virology 274:120–139 [CrossRef]
    [Google Scholar]
  7. Bennett C. J., Webb M., Willer D. O., Evans D. H. 2003; Genetic and phylogenetic characterization of the type II cyclobutane pyrimidine dimer photolyases encoded by Leporipoxviruses. Virology 315:10–19 [CrossRef]
    [Google Scholar]
  8. Bulach D. M., Kumar C. A., Zaia A., Liang B., Tribe D. E. 1999; Group II nucleopolyhedrovirus subgroups revealed by phylogenetic analysis of polyhedrin and DNA polymerase gene sequences. J Invertebr Pathol 73:59–73 [CrossRef]
    [Google Scholar]
  9. Carell T., Burgdorf L. T., Kundu L. M., Cichon M. 2001; The mechanism of action of DNA photolyases. Curr Opin Chem Biol 5:491–498 [CrossRef]
    [Google Scholar]
  10. Chen X., IJkel W. F., Tarchini R. 8 other authors 2001; The sequence of the Helicoverpa armigera single nucleocapsid nucleopolyhedrovirus genome. J Gen Virol 82:241–257
    [Google Scholar]
  11. Chen R., Wang H., Mansky L. M. 2002a; Roles of uracil-DNA glycosylase and dUTPase in virus replication. J Gen Virol 83:2339–2345
    [Google Scholar]
  12. Chen X., Zhang W. J., Wong J. 9 other authors 2002b; Comparative analysis of the complete genome sequences of Helicoverpa zea and Helicoverpa armigera single-nucleocapsid nucleopolyhedroviruses. J Gen Virol 83:673–684
    [Google Scholar]
  13. Dai X., Stewart T. M., Pathakamuri J. A., Li Q., Theilmann D. A. 2004; Autographa californica multiple nucleopolyhedrovirus exon0 ( orf141 ), which encodes a RING finger protein, is required for efficient production of budded virus. J Virol 78:9633–9644 [CrossRef]
    [Google Scholar]
  14. Deisenhofer J. 2000; DNA photolyases and cryptochromes. Mutat Res 460:143–149 [CrossRef]
    [Google Scholar]
  15. de Jong J. G., Lauzon H. A., Dominy C., Poloumienko A., Carstens E. B., Arif B. M., Krell P. J. 2005; Analysis of the Choristoneura fumiferana nucleopolyhedrovirus genome. J Gen Virol 86:929–943 [CrossRef]
    [Google Scholar]
  16. Garcia-Maruniak A., Maruniak J. E., Zanotto P. M. A., Doumbouya A. E., Liu J.-C., Merritt T. M., Lanoie J. S. 2004; Sequence analysis of the genome of the Neodiprion sertifer nucleopolyhedrovirus. J Virol 78:7036–7051 [CrossRef]
    [Google Scholar]
  17. Gomi S., Majima K., Maeda S. 1999; Sequence analysis of the genome of Bombyx mori nucleopolyhedrovirus. J Gen Virol 80:1323–1337
    [Google Scholar]
  18. Green M. C., Monser K. P., Clem R. J. 2004; Ubiquitin protein ligase activity of the anti-apoptotic baculovirus protein Op-IAP3. Virus Research 105:89–96 [CrossRef]
    [Google Scholar]
  19. Guindon S., Gascuel O. 2003; A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52:696–704 [CrossRef]
    [Google Scholar]
  20. Harrison R. L., Bonning B. C. 2003; Comparative analysis of the genomes of Rachiplusia ou and Autographa californica multiple nucleopolyhedroviruses. J Gen Virol 84:1827–1842 [CrossRef]
    [Google Scholar]
  21. Hashimoto Y., Hayakawa T., Ueno Y., Fujita T., Sano Y., Matsumoto T. 2000; Sequence analysis of the Plutella xylostella granulovirus genome. Virology 275:358–372 [CrossRef]
    [Google Scholar]
  22. Hayakawa T., Ko R., Okano K., Seong S. I., Goto C., Maeda S. 1999; Sequence analysis of the Xestia c-nigrum granulovirus genome. Virology 262:277–297 [CrossRef]
    [Google Scholar]
  23. Herniou E. A., Luque T., Chen X., Vlak J. M., Winstanley D., Cory J. S., O'Reilly D. R. 2001; Use of whole genome sequence data to infer baculovirus phylogeny. J Virol 75:8117–8126 [CrossRef]
    [Google Scholar]
  24. Herniou E. A., Olszewski J. A., Cory J. S., O'Reilly D. R. 2003; The genome sequence and evolution of baculoviruses. Annu Rev Entomol 48:211–234 [CrossRef]
    [Google Scholar]
  25. Herniou E. A., Olszewski J. A., O'Reilly D. R., Cory J. S. 2004; Ancient coevolution of baculoviruses and their insect hosts. J Virol 78:3244–3251 [CrossRef]
    [Google Scholar]
  26. Hu Z., Arif B. M., Jin F., Martens J. W., Chen X. W., Sun J. S., Zuidema D., Goldbach R. W., Vlak J. M. 1998; Distinct gene arrangement in the Buzura suppressaria single-nucleocapsid nucleopolyhedrovirus genome. J Gen Virol 79:2841–2851
    [Google Scholar]
  27. Hyink O., Dellow R. A., Olsen M. J., Caradoc-Davies K. M., Drake K., Herniou E. A., Cory J. S., O'Reilly D. R., Ward V. K. 2002; Whole genome analysis of the Epiphyas postvittana nucleopolyhedrovirus. J Gen Virol 83:957–971
    [Google Scholar]
  28. IJkel W. F., van Strien E. A., Heldens J. G., Broer R., Zuidema D., Goldbach R. W., Vlak J. M. 1999; Sequence and organization of the Spodoptera exigua multicapsid nucleopolyhedrovirus genome. J Gen Virol 80:3289–3304
    [Google Scholar]
  29. Kara P. D., Afonso C. L., Wallace D. B. 8 other authors 2003; Comparative sequence analysis of the South African vaccine strain and two virulent field isolates of lumpy skin disease virus. Arch Virol 148:1335–1356
    [Google Scholar]
  30. Krishnan A., Tang F. 2004; Exhaustive whole-genome tandem repeats search. Bioinformatics 20:2702–2710 [CrossRef]
    [Google Scholar]
  31. Kuzio J., Pearson M. N., Harwood S. H., Funk C. J., Evans J. T., Slavicek J. M., Rohrmann G. F. 1999; Sequence and analysis of the genome of a baculovirus pathogenic for Lymantria dispar . Virology 253:17–34 [CrossRef]
    [Google Scholar]
  32. Lange M., Jehle J. A. 2003; The genome of the Cryptophlebia leucotreta granulovirus. Virology 317:220–236 [CrossRef]
    [Google Scholar]
  33. Lauzon H. A., Lucarotti C. J., Krell P. J., Feng Q., Retnakaran A., Arif B. M. 2004; Sequence and organization of the Neodiprion lecontei nucleopolyhedrovirus genome. J Virol 78:7023–7035 [CrossRef]
    [Google Scholar]
  34. Lauzon H. A., Jamieson P. B., Krell P. J., Arif B. M. 2005; Gene organization and sequencing of the Choristoneura fumiferana defective nucleoployhedrovirus genome. J Gen Virol 86:945–961 [CrossRef]
    [Google Scholar]
  35. Li L., Donly C., Li Q., Willis L. G., Keddie B. A., Erlandson M. A., Theilmann D. A. 2002a; Identification and genomic analysis of a second species of nucleopolyhedrovirus isolated from Mamestra configurata . Virology 297:226–244 [CrossRef]
    [Google Scholar]
  36. Li Q., Donly C., Li L., Willis L. G., Theilmann D. A., Erlandson M. 2002b; Sequence and organization of the Mamestra configurata nucleopolyhedrovirus genome. Virology 294:106–121 [CrossRef]
    [Google Scholar]
  37. Luque T., Finch R., Crook N., O'Reilly D. R., Winstanley D. 2001; The complete sequence of the Cydia pomonella granulovirus genome. J Gen Virol 82:2531–2547
    [Google Scholar]
  38. Martin J., Gruber M., Lupas A. N. 2004; Coiled coils meet the chaperone world. Trends Biochem Sci 29:455–458 [CrossRef]
    [Google Scholar]
  39. Nakai M., Goto C., Kang W., Shikata M., Luque T., Kunimi Y. 2003; Genome sequence and organization of a nucleopolyhedrovirus isolated from the smaller tea tortrix, Adoxophyes honmai . Virology 316:171–183 [CrossRef]
    [Google Scholar]
  40. Pang Y., Yu J., Wang L. 7 other authors 2001; Sequence analysis of the Spodoptera litura multicapsid nucleopolyhedrovirus genome. Virology 287:391–404 [CrossRef]
    [Google Scholar]
  41. Sancar A., Rupert C. S. 1978; Cloning of the phr gene and amplification of photolyase in Escherichia coli . Gene 4:295–308 [CrossRef]
    [Google Scholar]
  42. Swofford D. L. 2001 paup* 4 (Phylogenetic Analysis Using Parsimony)* and Other Methods) Sunderland, MA: Sinauer Associates;
    [Google Scholar]
  43. van Oers M. M., Herniou E. A., Usmany M., Messelink G. J., Vlak J. M. 2004; Identification and characterization of a DNA photolyase-containing baculovirus from Chrysodeixis chalcites . Virology 330:460–470 [CrossRef]
    [Google Scholar]
  44. van Regenmortel M. H. V., Fauquet C. M., Bishop D. H. L. 8 other authors; 2000; Virus taxonomy, classification and nomenclature of viruses. In Seventh Report of the International Committee on Taxonomy of Viruses San Diego: Academic Press;
    [Google Scholar]
  45. Willer D. O., McFadden G., Evans D. H. 1999; The complete genome sequence of shope (rabbit) fibroma virus. Virology 264:319–343 [CrossRef]
    [Google Scholar]
  46. Wormleaton S., Kuzio J., Winstanley D. 2003; The complete sequence of the Adoxophyes orana granulovirus genome. Virology 311:350–365 [CrossRef]
    [Google Scholar]
  47. Yang Z. 1994; Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods. J Mol Evol 39:306–314 [CrossRef]
    [Google Scholar]
  48. Zanotto P. M., Kessing B. D., Maruniak J. E. 1993; Phylogenetic interrelationships among baculoviruses: evolutionary rates and host associations. J Invertebr Pathol 62:147–164 [CrossRef]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/jgv/10.1099/vir.0.80964-0
Loading
/content/journal/jgv/10.1099/vir.0.80964-0
Loading

Data & Media loading...

Most cited this month

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error