1887

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Volume 82, Issue 1

The sequence of the single nucleocapsid nucleopolyhedrovirus genome Free

Abstract

The nucleotide sequence of the single-nucleocapsid nucleopolyhedrovirus (HaSNPV) DNA genome was determined and analysed. The circular genome encompasses 131403 bp, has a G+C content of 39·1 mol% and contains five homologous regions with a unique pattern of repeats. Computer-assisted analysis revealed 135 putative ORFs of 150 nt or larger; 100 ORFs have homologues in multicapsid NPV (AcMNPV) and a further 15 ORFs have homologues in other baculoviruses such as MNPV (LdMNPV), MNPV (SeMNPV) and granulovirus (XcGV). Twenty ORFs are unique to HaSNPV without homologues in GenBank. Among the six previously sequenced baculoviruses, AcMNPV, NPV (BmNPV), MNPV (OpMNPV), SeMNPV, LdMNPV and XcGV, 65 ORFs are conserved and hence are considered as core baculovirus genes. The mean overall amino acid identity of HaSNPV ORFs was the highest with SeMNPV and LdMNPV homologues. Other than three ‘baculovirus repeat ORFs’ () and two ‘inhibitor of apoptosis’ () genes, no duplicated ORFs were found. A putative ORF showing similarity to poly(ADP-ribose) glycohydrolases () was newly identified. The HaSNPV genome lacks a homologue of the major budded virus (BV) glycoprotein gene, , of AcMNPV, BmNPV and OpMNPV. Instead, a homologue of SeMNPV ORF8, encoding the major BV envelope protein, has been identified. GeneParityPlot analysis suggests that HaSNPV, SeMNPV and LdMNPV (group II) have structural genomic features in common and are distinct from the group I NPVs and from the granuloviruses. Cluster alignment between group I and group II baculoviruses suggests that they have a common ancestor.

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© Microbiology Society
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2001-01-01
2024-04-26
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References

  1. Ahrens C. H., Russell R., Funk C. J., Evans J. T., Harwood S. H., Rohrmann G. F. 1997; The sequence of the Orgyia pseudotsugata multinucleocapsid polyhedrosis virus genome. Virology 229:381–399
     [Google Scholar]
  2. Altschul S. F., Gish W., Miller W., Meyers E. W., Lipman D. J. 1990; Basic local alignment search tool. Journal of Molecular Biology 215:403–410
     [Google Scholar]
  3. 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]
  4. Birnbaum M. J., Clem R. J., Miller L. K. 1994; An apoptosis-inhibiting gene from a nuclear polyhedrosis virus encoding a polypeptide with Cys/His sequence motifs. Journal of Virology 68:2521–2528
     [Google Scholar]
  5. Bonfield J. K., Smith K. F., Staden R. 1995; A new DNA sequence assembly program. Nucleic Acids Research 24:4992–4999
     [Google Scholar]
  6. Bulach D. M., Kumar C. A., Zaia A., Liang B. F., Tribe D. E. 1999; Group II nucleopolyhedrovirus subgroups revealed by phylogenetic analysis of polyhedrin and DNA polymerase gene sequences. Journal of Invertebrate Pathology 73:59–73
     [Google Scholar]
  7. Chen X., Hu Z., Jehle J. A., Zhang Y., Vlak J. M. 1997a; Analysis of the ecdysteroid UDP-glucosyltransferase gene of Heliothis armigera single-nucleocapsid baculovirus. Virus Genes 15:219–225
     [Google Scholar]
  8. Chen X., Hu Z. H., Vlak J. M. 1997b; Nucleotide sequence analysis of the polyhedrin gene of Heliothis armigera single nucleocapsid nuclear polyhedrosis virus. Virologica Sinica 12:346–353
     [Google Scholar]
  9. Chen X., IJkel W. F. J., Dominy C., Zanotto P. de A., Hashimoto Y., Faktor O., Hayakawa T., Wang C. H., Krell P. J., Hu Z., Vlak J. M. 1999; Identification, sequence and phylogeny of the lef-2 gene of Helicoverpa armigera single-nucleocapsid baculovirus. Virus Research 65:21–32
     [Google Scholar]
  10. Chen X., Li M., Sun X., Arif B. M., Hu Z. H., Vlak J. M. 2000a; Genomic organization of Helicoverpa armigera single-nucleocapsid nucleopolyhedrovirus. Archives of Virology 145: (in press)
    [Google Scholar]
  11. Chen X., Sun X., Hu Z. H., Li M., O’Reilly D. R., Zuidema D., Vlak J. M. 2000b; Genetic engineering of Helicoverpa armigera single-nucleocapsid nucleopolyhedrovirus as an improved bioinsecticide. Journal of Invertebrate Pathology 76:140–146
     [Google Scholar]
  12. Chisholm G. E., Henner D. J. 1988; Multiple early transcripts and splicing of the Autographa californica nuclear polyhedrosis virus IE-1 gene. Journal of Virology 62:3193–3200
     [Google Scholar]
  13. Clem R. J., Miller L. K. 1994; Control of programmed cell death by the baculovirus genes p35 and iap. Molecular. Cell Biology 14:5212–5222
     [Google Scholar]
  14. Cochran M. A., Faulkner P. 1983; Location of homologous DNA sequences interspersed at five regions in the baculovirus AcMNPV genome. Journal of Virology 45:961–970
     [Google Scholar]
  15. Cowan P., Bulach D., Goodge K., Robertson A., Tribe D. E. 1994; Nucleotide sequence of the polyhedrin gene region of Helicoverpa zea single nucleocapsid nuclear polyhedrosis virus: placement of the virus in lepidopteran nuclear polyhedrosis group II. Journal of General Virology 75:3211–3218
     [Google Scholar]
  16. Crook N. E., Clem R. J., Miller L. K. 1993; An apoptosis-inhibiting baculovirus gene with a zinc finger-like motif. Journal of Virology 67:2168–2174
     [Google Scholar]
  17. D’Amours D., Desnoyers S., d’Silva I., Poirier G. G. 1999; Poly (ADP-ribosyl)ation reactions in the regulation of nuclear functions. Biochemical Journal 342:249–268
     [Google Scholar]
  18. Devereux J., Haeberli P., Smithies O. 1984; A comprehensive set of sequence analysis programs for the VAX. Nucleic Acids Research 12:387–395
     [Google Scholar]
  19. Domingo E., Holland J. J., Biebricher C., Eigen M. 1995; Quasispecies: the concept and the world. In Molecular Basis of Evolution pp 171–180 Edited by Gibbs A., Calisher C. , Garcia-Arenal F. Cambridge: Cambridge University Press;
     [Google Scholar]
  20. Ewing B., Green P. 1998; Basecalling of automated sequencer traces using PHRED. II. Error probabilities. Genome Research 8:186–194
     [Google Scholar]
  21. Ewing B., Hillier L., Wendl M. C., Green P. 1998; Basecalling of automated sequencer traces using PHRED. I. Accuracy assessment. Genome Research 8:175–185
     [Google Scholar]
  22. Federici B. A. 1999; Naturally occurring baculoviruses for insect pest control. Methods in Biotechnology 5:301–320
     [Google Scholar]
  23. Figueiredo E., Muñoz D., Escribano A., Mexia A., Vlak J. M., Caballero P. 1999; Biochemical identification and comparative insecticidal activity of nucleopolyhedrovirus isolates pathogenic for Heliothis armigera (Lep., Noctuidae) larvae. Journal of Applied Entomology 123:165–169
     [Google Scholar]
  24. Gettig R. R., McCarthy W. J. 1982; Genotypic variation among wild isolates of Heliothis spp nuclear polyhedrosis viruses from different geographical regions. Virology 117:245–252
     [Google Scholar]
  25. 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]
  26. Guarino L. A., Summers M. D. 1986; Interspersed homologous DNA of Autographa californica nuclear polyhedrosis virus enhances delayed-early gene expression. Journal of Virology 60:215–223
     [Google Scholar]
  27. Guarino L. A., Gonzales M. A., Summers M. D. 1986; Complete sequence and enhancer function of the homologous DNA regions of Autographa californica nuclear polyhedrosis virus. Journal of Virology 60:224–229
     [Google Scholar]
  28. Guarino L. A., Xu B., Jin J. P., Dong W. 1998; A virus-encoded RNA polymerase purified from baculovirus-infected cells. Journal of Virology 72:7985–7991
     [Google Scholar]
  29. Hayakawa T., Ko R., Okano K., Seong S., Goto C., Maeda S. 1999; Sequence analysis of the Xestia c-nigrum granulovirus genome. Virology 262:277–297
     [Google Scholar]
  30. Heldens J. G. M., Yi L., Zuidema D., Goldbach R. W., Vlak J. M. 1998; A highly conserved genomic region in baculoviruses: sequence and transcriptional analysis of an 11·3 kbp DNA fragment (46·5–55·1 mu) from the Spodoptera exigua multicapsid nucleopolyhedrovirus. Virus Research 55:187–198
     [Google Scholar]
  31. 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]
  32. 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]
  33. IJkel W. F. J., Westenberg M., Goldbach R. W., Blissard G. W., Vlak J. M., Zuidema D. 2000; A novel baculovirus envelope fusion protein with a proprotein convertase cleavage site. Virology 275:30–41
     [Google Scholar]
  34. Kim D., Weaver R. F. 1993; Transcription mapping and functional analysis of the protein tyrosine/serine phosphatase (PTPase) gene of the Autographa californica nuclear polyhedrosis virus. Virology 195:587–595
     [Google Scholar]
  35. King L. A., Possee R. D. 1992 The Baculovirus Expression System: A Laboratory Guide pp 180–194 London: Chapman and Hall;
  36. Kool M., Ahrens C. H., Vlak J. M., Rohrmann G. F. 1995; Replication of baculovirus DNA. Journal of General Virology 76:2103–2118
     [Google Scholar]
  37. 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]
  38. Le T. H., Wu T., Robertson A., Bulach D., Cowan P., Goodge K., Tribe D. 1997; Genetically variable triplet repeats in a RING-finger ORF of Helicoverpa species baculoviruses. Virus Research 49:67–77
     [Google Scholar]
  39. Lu A., Miller L. K. 1995; The roles of eighteen baculovirus late expression factor genes in transcription and DNA replication. Journal of Virology 69:975–982
     [Google Scholar]
  40. Ma S.-W., Corsaro B. G., Klebba P. E., Fraser M. J. 1993; Cloning and sequence analysis of a p40 structural protein of Helicoverpa zea nuclear polyhedrosis virus. Virology 192:224–233
     [Google Scholar]
  41. Mikhailov V. S., Mikhailova A. L., Iwanaga M., Gomi S., Maeda S. 1998; Bombyx mori nucleopolyhedrovirus encodes a DNA-binding protein capable of destabilizing duplex DNA. Journal of Virology 72:3107–3116
     [Google Scholar]
  42. Moscardi F. 1999; Assessment of the application of baculoviruses for control of Lepidoptera. Annual Reviews of Entomology 44:257–289
     [Google Scholar]
  43. Muñoz D., Castillejo J. I., Caballero P. 1998; Naturally occurring deletion mutants are parasitic genotypes in a wild-type nucleopolyhedrovirus population of Spodoptera exigua . Applied and Environmental Microbiology 64:4372–4377
     [Google Scholar]
  44. Murphy F. A., Fauquet C. M., Bishop D. H. L., Ghabrial S. A., Jarvis A. W., Martelli G. P., Mayo M. A., Summers M. D. (editors) 1995; Virus Taxonomy. Sixth Report of the International Committee on Taxonomy of Viruses New York: Springer–Verlag;
     [Google Scholar]
  45. Okano K., Mikhailov V. S., Maeda S. 1999; Colocalization of baculovirus IE-1 and two DNA-binding proteins, DBP and LEF-3, to viral replication factories. Journal of Virology 73:110–119
     [Google Scholar]
  46. Oomens A. G. P., Blissard G. W. 1999; Requirement for gp64 to drive efficient budding of Autographa californica multicapsid nucleopolyhedrovirus. Virology 254:297–314
     [Google Scholar]
  47. O’Reilly D. R. 1997; Auxiliary genes of baculoviruses. In The Baculoviruses pp 267–295 Edited by Miller L. K. New York: Plenum;
     [Google Scholar]
  48. Pearson W. R. 1990; Rapid and sensitive sequence comparison with FASTP and FASTA. Methods in Enzymology 183:63–98
     [Google Scholar]
  49. 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]
  50. Smith I. R., Crook N. E. 1988; In vivo isolation of baculovirus genotypes. Virology 166:240–244
     [Google Scholar]
  51. Sun X. L., Zhang G. Y., Zhang Z. X., Hu Z. H., Vlak J. M., Arif B. M. 1998; In vivo cloning of Helicoverpa armigera single nucleocapsid nuclear polyhedrosis virus genotypes. Virologica Sinica 13:83–88
     [Google Scholar]
  52. Tilakaratne N., Hardin S. E., Weaver R. F. 1991; Nucleotide sequence and transcript mapping of the Hin dIII F region of the Autographa californica nuclear polyhedrosis virus. Journal of General Virology 72:285–291
     [Google Scholar]
  53. Todd J. W., Passarelli A. L., Miller L. K. 1996; Factors regulating baculovirus late and very late gene expression in transient-expression assays. Journal of Virology 70:2307–2317
     [Google Scholar]
  54. Van Strien E. A., IJkel W. F. J., Gerrits H., Vlak J. M., Zuidema D. 2000; Characteristics of the transactivator gene ie-1 of Spodoptera exigua multiple-nucleocapsid nucleopolyhedrovirus. Archives of Virology 145:2115–2133
     [Google Scholar]
  55. Vlak J. M., Smith G. E. 1982; Orientation of the genome of Autographa californica nuclear polyhedrosis virus: a proposal. Journal of Virology 41:1118–1121
     [Google Scholar]
  56. Wang J. W., Qi Y. P., Huang Y. X., Li S. D. 1995; Nucleotide sequence of a 1446 base pair Sal I fragment and structure of a novel early gene of Leucania separata nuclear polyhedrosis virus. Archives of Virology 140:2283–2291
     [Google Scholar]
  57. Wishart M. J., Denu J. M., Williams J. A., Dixon J. E. 1995; A single mutation converts a novel phosphotyrosine binding domain into a dual-specificity phosphatase. Journal of Biological Chemistry 270:26782–26785
     [Google Scholar]
  58. Wu Y., Carstens E. H. 1998; A baculovirus single-stranded DNA binding protein, LEF-3, mediates the nuclear localization of the putative helicase P143. Virology 247:32–40
     [Google Scholar]
  59. Zanotto P. M. de A., 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]
  60. Zhang G. 1994; Research, development and application of Heliothis viral pesticide in China. Resources and Environment in the Yangtze Valley 3:1–6
     [Google Scholar]
  61. Zhang G., Zhang Y., Ge L., Shan Z. 1981; The production and application of the nuclear polyhedrosis virus of Heliothis armigera (Hübner) in biological control. Acta Phytophylacica Sinica 8:235–240
     [Google Scholar]
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The sequence of the Helicoverpa armigera single nucleocapsid nucleopolyhedrovirus genome
J. Gen. Virol. 82, 241 (2001); https://doi.org/10.1099/0022-1317-82-1-241
/content/journal/jgv/10.1099/0022-1317-82-1-241
/content/journal/jgv/10.1099/0022-1317-82-1-241
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