1887

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Volume 83, Issue 4

Whole genome analysis of the nucleopolyhedrovirus Free

Abstract

The nucleotide sequence of the nucleopolyhedrovirus (EppoMNPV) genome has been determined and analysed. The circular dsDNA genome contains 118584 bp, making it the smallest group I NPV sequenced to date. The genome has a G+C content of 40·7% and encodes 136 predicted open reading frames (ORFs), five homologous repeat regions and one unique repeat region. Of the genome, 92·9% encodes predicted ORFs and 2·2% is in repeat regions; the remaining 4·9% of the genome comprises nonrepeat intergenic regions. EppoMNPV encodes homologues of 126 MNPV (OpMNPV) ORFs and 120 MNPV ORFs, with average identities of 64·7 and 53·5%, respectively. Between the four sequenced group I NPVs, 117 ORFs are conserved, whereas 86 ORFs are conserved between all fully sequenced NPVs. A total of 62 ORFs is present in all baculoviruses sequenced to date, with EppoMNPV lacking a homologue of the superoxide dismutase () gene, which has been found in all other fully sequenced baculoviruses. Whole genome phylogenetic analyses of the ten fully sequenced baculoviruses using the sequences of the 62 shared genes, gene content and gene order data sets confirmed that EppoMNPV clusters tightly with OpMNPV in the group I NPVs. The main variation between EppoMNPV and OpMNPV occurs where extra clusters of genes are present in OpMNPV, with occurring in one such cluster. EppoMNPV encodes one truncated baculovirus repeated ORF () gene. The only repeated ORFs are the four genes. Eight, randomly distributed, unique ORFs were identified on EppoMNPV, none of which show any significant homology to genes in GenBank.

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2002-04-01
2024-04-24
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References

  1. 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
     [Google Scholar]
  2. 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
     [Google Scholar]
  3. 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
     [Google Scholar]
  4. Blissard G. W., Rohrmann G. F. 1989; Location, sequence, transcriptional mapping, and temporal expression of the gp64 envelope glycoprotein gene of the Orgyia pseudotsugata multicapsid nuclear polyhedrosis virus. Virology 170:537–555
     [Google Scholar]
  5. Blissard G. W., Black B., Crook N., Keddie B. A., Possee R. D., Rohrmann G. F., Theilmann D., Volkman L. 2000; Baculoviridae . In Virus Taxonomy: Seventh Report of the International Committee on Taxonomy of Viruses. pp 195–202 Edited by van Regenmortel M. H. V., Fauquet C. M., Bishop D. H. L., Carstens E. B., Estes M. K., Lemon S. M., Maniloff J., Mayo M. A., McGeoch D. J., Pringle C. R., Wickner R. B. San Diego: Academic Press;
  6. Caradoc-Davies K. M. B., Graves S., O’Reilly D. R., Evans O. P., Ward V. K. 2001; Identification and in vivo characterization of the Epiphyas postvittana nucleopolyhedrovirus ecdysteroid UDP-glucosyltransferase. Virus Genes 22:255–264
     [Google Scholar]
  7. Carson D. D., Summers M. D., Guarino L. A. 1991; Molecular analysis of a baculovirus regulatory gene. Virology 182:279–286
     [Google Scholar]
  8. Chen C.-J., Leisy D. J., Thiem S. M. 1996; Physical map of Anagrapha falcifera multinucleocapsid nuclear polyhedrosis virus. Journal of General Virology 77:167–171
     [Google Scholar]
  9. Chen X., IJkel W. F. J., Tarchini R., Sun X., Sandbrink H., Wang H., Peters S., Zuidema D., Lankhorst R. K., Vlak J. M., Hu Z. 2001; The sequence of the Helicoverpa armigera single nucleocapsid nucleopolyhedrovirus genome. Journal of General Virology 82:241–257
     [Google Scholar]
  10. Cheng X. W., Carner G. R. 2000; Characterization of a single-nucleocapsid nucleopolyhedrovirus of Thysanoplusia orichalcea L. (Lepidoptera: Noctuidae) from Indonesia. Journal of Invertebrate Pathology 75:279–287
     [Google Scholar]
  11. Das R. H., Prasad Y. D. 1996; Restriction endonuclease analysis of a Spodoptera litura nuclear polyhedrosis virus (NPV) isolate. Biochemistry and Molecular Biology International 39:1–11
     [Google Scholar]
  12. Federici B. A., Hice R. H. 1997; Organization and molecular characterization of genes in the polyhedrin region of the Anagrapha falcifera multinucleocapsid NPV. Archives of Virology 142:333–348
     [Google Scholar]
  13. Felsenstein J. 1995 PHYLIP: Phylogeny Inference Package, version 3.5c University of Washington; Seattle, WA, USA:
     [Google Scholar]
  14. Gomi S., Majima K., Maeda S. 1999; Sequence analysis of the genome of Bombyx mori nucleopolyhedrovirus. Journal of General Virology 80:1323–1337
     [Google Scholar]
  15. 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
     [Google Scholar]
  16. 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
     [Google Scholar]
  17. Hayakawa T., Rohrmann G. F., Hashimoto Y. 2000; Patterns of genome organization and content in lepidopteran baculoviruses. Virology 278:1–12
     [Google Scholar]
  18. 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. Journal of Virology 75:8117–8126
     [Google Scholar]
  19. Hu Z. H., Arif B. M., Jin F., Martens J. W. M., 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. Journal of General Virology 79:2841–2851
     [Google Scholar]
  20. Hyink O., Graves S., Fairbairn F. M., Ward V. K. 1998; Mapping and polyhedrin gene analysis of the Epiphyas postvittana nucleopolyhedrovirus genome. Journal of General Virology 79:2853–2862
     [Google Scholar]
  21. IJkel W. F. J., van Strien E. A., Heldens J. G. M., Broer R., Zuidema D., Goldbach R. W., Vlak J. M. 1999; Sequence and organization of the Spodoptera exigua multicapsid nucleopolyhedrovirus genome. Journal of General Virology 80:3289–3304
     [Google Scholar]
  22. Kool M., Ahrens C. H., Goldbach R. W., Rohrmann G. F., Vlak J. M. 1994; Identification of genes involved in DNA replication of the Autographa californica baculovirus. Proceedings of the National Academy of Sciences, USA 91:11212–11216
     [Google Scholar]
  23. 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
     [Google Scholar]
  24. Leisy D. J., Rohrmann G. F. 1993; Characterization of the replication of plasmids containing hr sequences in baculovirus-infected Spodoptera frugiperda cells. Virology 196:722–730
     [Google Scholar]
  25. Li S., Erlandson M., Moody D., Gillott C. 1997; A physical map of the Mamestra configurata nucleopolyhedrovirus genome and sequence analysis of the polyhedrin gene. Journal of General Virology 78:265–271
     [Google Scholar]
  26. Lu M., Iatrou K. 1997; Characterization of a domain of the genome of BmNPV containing a functional gene for a small capsid protein and harboring deletions eliminating three open reading frames that are present in AcNPV. Gene 185:69–75
     [Google Scholar]
  27. Luque T., Finch R., Crook N., O’Reilly D. R., Winstanley D. 2001; The complete sequence of the Cydia pomonella granulovirus genome. Journal of General Virology 82:2531–2547
     [Google Scholar]
  28. Maguire T., Harrison P., Hyink O., Kalmakoff J., Ward V. K. 2000; The inhibitors of apoptosis of Epiphyas postvittana nucleopolyhedrovirus. Journal of General Virology 81:2803–2811
     [Google Scholar]
  29. Morris T. D., Todd J. W., Fisher B., Miller L. K. 1994; Identification of lef-7 : a baculovirus gene affecting late gene expression. Virology 200:360–369
     [Google Scholar]
  30. Nielsen H., Engelbrecht J., Brunak S., von Heijne G. 1997; Identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites. Protein Engineering 10:1–6
     [Google Scholar]
  31. Pazin M. J., Kadonaga J. T. 1997; SWI2/SNF2 and related proteins: ATP-driven motors that disrupt protein–DNA interactions?. Cell 88:737–740
     [Google Scholar]
  32. Pearson M. N., Groten C., Rohrmann G. F. 2000; Identification of the Lymantria dispar nucleopolyhedrovirus envelope fusion protein provides evidence for a phylogenetic division of the Baculoviridae. Journal of Virology 74:6126–6131
     [Google Scholar]
  33. Peterson C. L. 1996; Multiple switches to turn on chromatin?. Current Opinion in Genetics and Development 6:171–175
     [Google Scholar]
  34. Richards A., Speight M., Cory J. 1999; Characterization of a nucleopolyhedrovirus from the vapourer moth, Orgyia antiqua (Lepidoptera Lymantriidae). Journal of Invertebrate Pathology 74:137–142
     [Google Scholar]
  35. Rodems S. M., Friesen P. D. 1995; Transcriptional enhancer activity of hr5 requires dual-palindrome half sites that mediate binding of a dimeric form of the baculovirus transregulator IE1. Journal of Virology 69:5368–5375
     [Google Scholar]
  36. Rost B. 1996; PHD: predicting one-dimensional protein structure by profile-based neural networks. Methods in Enzymology 266:525–539
     [Google Scholar]
  37. Sadler T. J., Glare T. R., Ward V. K., Kalmakoff J. 2000; Physical and genetic map of the Wiseana nucleopolyhedrovirus genome. Journal of General Virology 81:1127–1133
     [Google Scholar]
  38. Shippam C., Wu X., Stewart S., Theilmann D. A. 1997; Characterization of a unique OpMNPV-specific early gene not required for viral infection in tissue culture. Virology 227:447–459
     [Google Scholar]
  39. Tomalski M. D., Eldridge R., Miller L. K. 1991; A baculovirus homolog of a Cu/Zn superoxide dismutase gene. Virology 184:149–161
     [Google Scholar]
  40. Tsukiyama T., Wu C. 1997; Chromatin remodeling and transcription. Current Opinion in Genetics and Development 7:182–191
     [Google Scholar]
  41. Wu X., Stewart S., Theilmann D. A. 1993; Characterization of an early gene coding for a highly basic 8·9K protein from the Orgyia pseudotsugata multicapsid nuclear polyhedrosis virus. Journal of General Virology 74:1591–1598
     [Google Scholar]
  42. Zanotto P. M., Kessing B. D., Maruniak J. E. 1993; Phylogenetic interrelationships among baculoviruses: evolutionary rates and host associations. Journal of Invertebrate Pathology 62:147–164
     [Google Scholar]
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Whole genome analysis of the Epiphyas postvittana nucleopolyhedrovirus
J. Gen. Virol. 83, 957 (2002); https://doi.org/10.1099/0022-1317-83-4-957
/content/journal/jgv/10.1099/0022-1317-83-4-957
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