1887

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Volume 80, Issue 12

Sequence and organization of the multicapsid nucleopolyhedrovirus genome Free

Abstract

The nucleotide sequence of the DNA genome of multicapsid nucleopolyhedrovirus (SeMNPV), a group II NPV, was determined and analysed. The genome contains 135611 bp and has a G+C content of 44 mol%. Computer-assisted analysis revealed 139 ORFs of 150 nucleotides or larger; 103 have homologues in MNPV (AcMNPV) and a further 16 have homologues in other baculoviruses. Twenty ORFs are unique to SeMNPV. Major differences in SeMNPV gene content and arrangement were found compared with the group I NPVs AcMNPV, (Bm) NPV and (Op) MNPV and the group II NPV (Ld) MNPV. Eighty-five ORFs were conserved among all five baculoviruses and are considered as candidate core baculovirus genes. Two putative and homologues were identified in SeMNPV, each of which appeared to have been acquired independently and not by gene duplication. The SeMNPV genome lacks homologues of the major budded virus glycoprotein gene , the immediate-early transactivator and (baculovirus repeat ORF) genes that are found in AcMNPV, BmNPV, OpMNPV and LdMNPV. Gene parity analysis of baculovirus genomes suggests that SeMNPV and LdMNPV have a recent common ancestor and that they are more distantly related to the group I baculoviruses AcMNPV, BmNPV and OpMNPV. The orientation of the SeMNPV genome is reversed compared with the genomes of AcMNPV, BmNPV, OpMNPV and LdMNPV. However, the gene order in the ‘central’ part of baculovirus genomes is highly conserved and appears to be a key feature in the alignment of baculovirus genomes.

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1999-12-01
2024-04-28
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References

  1. Adams J. R., McClintock J. T. 1991; Nuclear polyhedrosis viruses of insects. In Atlas of Invertebrate Viruses pp 87–204 Edited by Adams J. R., Bonami J. R. Boca Raton, FL: CRC Press;
     [Google Scholar]
  2. Ahrens C. H., Rohrmann G. F. 1995; Replication of Orgyia pseudotsugata baculovirus DNA: lef-2 and ie-1 are essential and ie-2 , p34 , and Op-iap are stimulatory genes. Virology 212:650–662
     [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
     [Google Scholar]
  4. Altschul S. F., Gish W., Miller W., Myers E. W., Lipman D. J. 1990; Basic local alignment search tool. Journal of Molecular Biology 215:403–410
     [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
     [Google Scholar]
  6. Bairoch A., Bucher P., Hofmann K. 1997; The PROSITE database, its status in 1997. Nucleic Acids Research 25:217–221
     [Google Scholar]
  7. 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]
  8. Bischoff D. S., Slavicek J. M. 1997; Molecular analysis of an enhancin gene in the Lymantria dispar nuclear polyhedrosis virus. Journal of Virology 71:8133–8140
     [Google Scholar]
  9. Bjornson R. M., Rohrmann G. F. 1992; Nucleotide sequence of the polyhedron envelope protein gene region of the Lymantria dispar nuclear polyhedrosis virus. Journal of General Virology 73:1499–1504
     [Google Scholar]
  10. Broer R., Heldens J. G. M., van Strien E. A., Zuidema D., Vlak J. M. 1998; Specificity of multiple homologous genomic regions in Spodoptera exigua nucleopolyhedrovirus DNA replication. Journal of General Virology 79:1563–1572
     [Google Scholar]
  11. Chen C. J., Thiem S. M. 1997; Differential infectivity of two Autographa californica nucleopolyhedrovirus mutants on three permissive cell lines is the result of lef-7 deletion. Virology 227:88–95
     [Google Scholar]
  12. Chen X., Hu Z., Jehle J. A., Zhang Y., Vlak J. M. 1997; Analysis of the ecdysteroid UDP-glucosyltransferase gene of Heliothis armigera single-nucleocapsid baculovirus. Virus Genes 15:219–225
     [Google Scholar]
  13. Chen X., IJkel W. F. J., Dominy C., Zanotto P. M. de A., Hashimoto Y., Faktor O., Hayakawa T., Wang C. H., Premkumar A., Mathavan S., 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 (in press)
    [Google Scholar]
  14. Clem R. J., Miller L. K. 1994; Control of programmed cell death by the baculovirus genes p35 and iap. Molecular and Cellular Biology 14:5212–5222
     [Google Scholar]
  15. Clem R. J., Robson M., Miller L. K. 1994; Influence of infection route on the infectivity of baculovirus mutants lacking the apoptosis-inhibiting gene p35 and the adjacent gene p94. Journal of Virology 68:6759–6762
     [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. Derksen A. C., Granados R. R. 1988; Alteration of a lepidopteran peritrophic membrane by baculoviruses and enhancement of viral infectivity. Virology 167:242–250
     [Google Scholar]
  18. Dever T. E., Sripriya R., McLachlin J. R., Lu J., Fabian J. R., Kimball S. R., Miller L. K. 1998; Disruption of cellular translational control by a viral truncated eukaryotic translation initiation factor 2α kinase homolog. Proceedings of the National Academy of Sciences, USA 95:4164–4169
     [Google Scholar]
  19. 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]
  20. Elledge S. J., Zhou Z., Allen J. B. 1992; Ribonucleotide reductase: regulation, regulation, regulation. Trends in Biochemical Sciences 17:119–123
     [Google Scholar]
  21. Fabian P., Murvai J., Hatsagi Z., Vlahovicek K., Hegyi H., Pongor S. 1997; The SBASE protein domain library, release 5.0: a collection of annotated protein sequence segments. Nucleic Acids Research 25:240–243
     [Google Scholar]
  22. Friesen P. D. 1993; Invertebrate transposable elements in the baculovirus genome: characterization and significance. In Parasites and Pathogens of Insects: Parasites pp 147–178 Edited by Beckage N. E., Thompson S. N., Federici B. A. London: Academic Press;
     [Google Scholar]
  23. Friesen P. D., Miller L. K. 1987; Divergent transcription of early 35- and 94-kilodalton protein genes encoded by the Hin dIII K genome fragment of the baculovirus Autographa californica nuclear polyhedrosis virus. Journal of Virology 61:2264–2272
     [Google Scholar]
  24. Gelernter W. D., Federici B. A. 1986; Isolation, identification and determination of virulence of a nuclear polyhedrosis virus from the beet armyworm, Spodoptera exigua (Lepidoptera: Noctuidae). Environmental Entomology 15:240–245
     [Google Scholar]
  25. Goenka S., Weaver R. F. 1996; Cellular localization of p26, an early AcMNPV gene product. In Abstracts of the 15th Annual Meeting of the American Society of Virology p. 154
     [Google Scholar]
  26. Gomi S., Zhou C. E., Yih W., Majima K., Maeda S. 1997; Deletion analysis of four of eighteen late gene expression factor gene homologues of the baculovirus, BmNPV. Virology 230:35–47
     [Google Scholar]
  27. 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]
  28. Griffiths C. M., Barnett A. L., Ayres M. D., Windass J., King L. A., Possee R. D. 1999; In vitro host range of Autographa californica nucleopolyhedrovirus recombinants lacking functional p35 , iap1 or iap2. Journal of General Virology 80:1055–1066
     [Google Scholar]
  29. Hashimoto Y., Corsaro B. G., Granados R. R. 1991; Location and nucleotide sequence of the gene encoding the viral enhancing factor of the Trichoplusia ni granulosis virus. Journal of General Virology 72:2645–2651
     [Google Scholar]
  30. Heldens J. G. M., van Strien E. A., Feldmann A. M., Kulcsár P., Munoz D., Leisy D. J., Zuidema D., Goldbach R. W., Vlak J. M. 1996; Spodoptera exigua multicapsid nucleopolyhedrovirus deletion mutants generated in cell culture lack virulence in vivo. Journal of General Virology 77:3127–3134
     [Google Scholar]
  31. Heldens J. G. M., Broer R., Zuidema D., Goldbach R. W., Vlak J. M. 1997a; Identification and functional analysis of a non- hr origin of DNA replication in the genome of Spodoptera exigua multicapsid nucleopolyhedrovirus. Journal of General Virology 78:1497–1506
     [Google Scholar]
  32. Heldens J. G. M., Liu Y., Zuidema D., Goldbach R. W., Vlak J. M. 1997b; Characterization of a putative Spodoptera exigua multicapsid nucleopolyhedrovirus helicase gene. Journal of General Virology 78:3101–3114
     [Google Scholar]
  33. Hong T., Braunagel S. C., Summers M. D. 1994; Transcription, translation, and cellular localization of PDV-E66: a structural protein of the PDV envelope of Autographa californica nuclear polyhedrosis virus. Virology 204:210–222
     [Google Scholar]
  34. Hu Z. H., Broer R., Westerlaken J., Martens J. W. M., Jin F., Jehle J. A., Wang L. M., Vlak J. M. 1997; Characterization of the ecdysteroid UDP-glucosyltransferase gene of a single nucleocapsid nucleopolyhedrovirus of Buzura suppressaria. Virus Research 47:91–97
     [Google Scholar]
  35. 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]
  36. Huh N. E., Weaver R. F. 1990; Identifying the RNA polymerases that synthesize specific transcripts of the Autographa californica nuclear polyhedrosis virus. Journal of General Virology 71:195–201
     [Google Scholar]
  37. Jehle J. A. 1996; Transmission of insect transposons into baculovirus genomes: an unusual host–pathogen interaction. In Transgenic Organisms – Biological and Social Implications pp. 81–97 Edited by Tomiuk J., Wohrmann K., Sentker A. Basel: Birlhauser Verlag;
     [Google Scholar]
  38. Jehle J. A., van der Linden I. F., Backhaus H., Vlak J. M. 1997; Identification and sequence analysis of the integration site of transposon TCp3.2 in the genome of Cydia pomonella granulovirus. Virus Research 50:151–157
     [Google Scholar]
  39. 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]
  40. 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]
  41. 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]
  42. Lepore L. S., Roelvink P. R., Granados R. R. 1996; Enhancin, the granulosis virus protein that facilitates nucleopolyhedrovirus (NPV) infections, is a metalloprotease. Journal of Invertebrate Pathology 68:131–140
     [Google Scholar]
  43. Liu J. J., Carstens E. B. 1996; Identification, molecular cloning, and transcription analysis of the Choristoneura fumiferana nuclear polyhedrosis virus spindle-like protein gene. Virology 223:396–400
     [Google Scholar]
  44. 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]
  45. 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]
  46. 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]
  47. Muñoz D., Murillo R., Krell P. J., Vlak J. M., Caballero P. 1999; Four genotypic variants of a Spodoptera exigua Nucleopolyhedrovirus (Se-SP2) are distinguishable by a hypervariable genomic region. Virus Research 59:61–74
     [Google Scholar]
  48. 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]
  49. 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]
  50. 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]
  51. O’Reilly D. R. 1997; Auxiliary genes of baculoviruses. In The Baculoviruses pp. 267–295 Edited by Miller L. K. New York: Plenum Press;
     [Google Scholar]
  52. Pearson W. R. 1990; Rapid and sensitive sequence comparison with FASTP and FASTA. Methods in Enzymology 183:63–98
     [Google Scholar]
  53. Phanis C. G., Miller D. P., Cassar S. C., Tristem M., Thiem S. M., O’Reilly D. R. 1999; Identification and expression of two baculovirus gp37 genes. Journal of General Virology 80:1823–1831
     [Google Scholar]
  54. Ranjan A., Hasnain S. E. 1995; Codon usage in the prototype baculovirus – Autographa californica nuclear polyhedrosis virus. Indian Journal of Biochemistry and Biophysics 32:424–428
     [Google Scholar]
  55. Roncarati R., Knebel-Mörsdorf D. 1997; Identification of the early actin-rearrangement-inducing factor gene, arif-1 , from Autographa californica multicapsid nuclear polyhedrosis virus. Journal of Virology 71:7933–7941
     [Google Scholar]
  56. Rost B., Sander C. 1993; Prediction of protein secondary structure at better than 70% accuracy. Journal of Molecular Biology 232:584–599
     [Google Scholar]
  57. Seshagiri S., Miller L. K. 1997; Baculovirus inhibitors of apoptosis (IAPs) block activation of Sf-caspase-1. Proceedings of the National Academy of Sciences USA 94:13606–13611
     [Google Scholar]
  58. Smits P. H. 1987; Nuclear polyhedrosis virus as biological control agent of Spodoptera exigua. PhD thesis Wageningen Agricultural University; Wageningen, The Netherlands:
     [Google Scholar]
  59. Smits P. H., van de Vrie M., Vlak J. M. 1988; Nuclear polyhedrosis virus control of Spodoptera exigua on glasshouse crops. Entomologia Experimentalis et Applicata 43:73–80
     [Google Scholar]
  60. 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 genome. Journal of General Virology 72:285–291
     [Google Scholar]
  61. van Strien E. A., Zuidema D., Goldbach R. W., Vlak J. M. 1992; Nucleotide sequence and transcriptional analysis of the polyhedrin gene of Spodoptera exigua nuclear polyhedrosis virus. Journal of General Virology 73:2813–2821
     [Google Scholar]
  62. van Strien E. A., Jansen B. J. H., Mans R. M. W., Zuidema D., Vlak J. M. 1996; Sequence and transcriptional analysis of the ubiquitin gene cluster in the genome of Spodoptera exigua nucleopolyhedrovirus. Journal of General Virology 77:2311–2319
     [Google Scholar]
  63. van Strien E. A., Faktor O., Hu Z. H., Zuidema D., Goldbach R. W., Vlak J. M. 1997; Baculoviruses contain a gene for the large subunit of ribonucleotide reductase. Journal of General Virology 78:2365–2377
     [Google Scholar]
  64. 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]
  65. Volkman L. E., Blissard G. W., Friesen P., Keddie B. A., Possee R., Theilmann D. A. 1995; Family Baculoviridae. In Virus Taxonomy. Sixth Report of the International Committee on Taxonomy of Viruses pp 104–113 Edited by 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. Vienna & New York: Springer-Verlag;
     [Google Scholar]
  66. Vucic D., Kaiser W. J., Miller L. K. 1998; A mutational analysis of the baculovirus inhibitor of apoptosis Op-IAP. Journal of Biological Chemistry 273:33915–33921
     [Google Scholar]
  67. Wang P., Granados R. R. 1997; An intestinal mucin is the target substrate for a baculovirus enhancin. Proceedings of the National Academy of Sciences USA 94:6977–6982
     [Google Scholar]
  68. Wang P., Granados R. R. 1998; Observations on the presence of the peritrophic membrane in larval Trichoplusia ni and its role in limiting baculovirus infection. Journal of Invertebrate Pathology 72:57–62
     [Google Scholar]
  69. 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]
  70. 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]
  71. Wu J., Miller L. K. 1989; Sequence, transcription and translation of a late gene of the Autographa californica nuclear polyhedrosis virus encoding a 34·8K polypeptide. Journal of General Virology 70:2449–2459
     [Google Scholar]
  72. 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]
  73. Zuidema D., van Oers M. M., van Strien E. A., Caballero P. C., Klok E.-J., Goldbach R. W., Vlak J. M. 1993; Nucleotide sequence and transcriptional analysis of the p10 gene of Spodoptera exigua nuclear polyhedrosis virus. Journal of General Virology 74:1017–1024
     [Google Scholar]
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Sequence and organization of the Spodoptera exigua multicapsid nucleopolyhedrovirus genome
J. Gen. Virol. 80, 3289 (1999); https://doi.org/10.1099/0022-1317-80-12-3289
/content/journal/jgv/10.1099/0022-1317-80-12-3289
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