Whole genome analysis of the Epiphyas postvittana nucleopolyhedrovirus

Hyink, Otto; Dellow, R.; Olsen, Michael J.; Caradoc-Davies, Katherine M. B.; Drake, Kylie M.; Herniou, Elisabeth A.; Cory, J. S.; O’Reilly, David R.; Ward, Vernon K.

doi:10.1099/0022-1317-83-4-957

Cited by 87 publications

(30 citation statements)

References 41 publications

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“…The loci known as homologous regions, hrs, of the lepidopteran-infecting NPVs have been found to function as enhancers of early gene transcription (30,33) and origins of DNA replication (56,80). The hrs of the lepidopteran-infecting NPVs have also been implicated as sites of DNA recombination (49). In NeabNPV, the location of this repeat element appears to coincide with major rearrangement events between the NeleNPV and NeabNPV genomes (Fig.…”

Section: Gvmentioning

confidence: 99%

Sequence Analysis and Organization of theNeodiprion abietisNucleopolyhedrovirus Genome

Duffy

Young

Morin

et al. 2006

J Virol

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Of 30 baculovirus genomes that have been sequenced to date, the only nonlepidopteran baculoviruses include the dipteran Culex nigripalpus nucleopolyhedrovirus and two hymenopteran nucleopolyhedroviruses that infect the sawflies Neodiprion lecontei (NeleNPV) and Neodiprion sertifer (NeseNPV). This study provides a complete sequence and genome analysis of the nucleopolyhedrovirus that infects the balsam fir sawfly Neodiprion abietis (Hymenoptera, Symphyta, Diprionidae). The N. abietis nucleopolyhedrovirus (NeabNPV) is 84,264 bp in size, with a G؉C content of 33.5%, and contains 93 predicted open reading frames (ORFs). Eleven predicted ORFs are unique to this baculovirus, 10 ORFs have a putative sequence homologue in the NeleNPV genome but not the NeseNPV genome, and 1 ORF (neab53) has a putative sequence homologue in the NeseNPV genome but not the NeleNPV genome. Specific repeat sequences are coincident with major genome rearrangements that distinguish NeabNPV and NeleNPV. Genes associated with these repeat regions encode a common amino acid motif, suggesting that they are a family of repeated contiguous gene clusters. Lepidopteran baculoviruses, similarly, have a family of repeated genes called the bro gene family. However, there is no significant sequence similarity between the NeabNPV and bro genes. Homologues of early-expressed genes such as ie-1 and lef-3 were absent in NeabNPV, as they are in the previously sequenced hymenopteran baculoviruses. Analyses of ORF upstream sequences identified potential temporally distinct genes on the basis of putative promoter elements.

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Section: Gvmentioning

confidence: 99%

Sequence Analysis and Organization of theNeodiprion abietisNucleopolyhedrovirus Genome

Duffy

Young

Morin

et al. 2006

J Virol

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“…SMART analysis also showed the presence of RCC1/␤-lactamase inhibitor protein II domains. There were no significant blastp matches to insect viruses, but all three ORFs showed significant matches to proteins in A. gambiae (nl69 [accession number EAA06079; e ϭ 10 Ϫ20 ; amino acid identity, 36.5%], nl70 [accession number EAA06079; e ϭ 4 ϫ 10 Ϫ11 ; amino acid identity, 27.6%] and nl71 [accession number A04764; e ϭ 2 ϫ 10 Ϫ4 ; amino acid identity, 23.0%]). Nl70 also showed a match to chromatin-binding protein BJ1 in D. melanogaster (accession number S15028; e ϭ 10 Ϫ10 ; amino acid identity, 23.9%), a homologue of the vertebrate RCC1 gene.…”

Section: ϫ45mentioning

confidence: 99%

“…As the number of sequenced genomes has increased, the number of conserved genes has decreased. Previous reports list 62 to 67 conserved baculovirus genes (13,31,32,36). With the publication of the Culex nigripalpus nucleopolyhedrovirus (CuniNPV) genome, that number decreased to 30 genes conserved in 13 baculoviruses (2,33).…”

mentioning

confidence: 99%

Sequence and Organization of the Neodiprion lecontei Nucleopolyhedrovirus Genome

Lauzon

Lucarotti

Krell

et al. 2004

J Virol

132

124

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All fully sequenced baculovirus genomes, with the exception of the dipteran Culex nigripalpus nucleopolyhedrovirus (CuniNPV), have previously been from Lepidoptera. This study reports the sequencing and characterization of a hymenopteran baculovirus, Neodiprion lecontei nucleopolyhedrovirus (NeleNPV), from the redheaded pine sawfly. NeleNPV has the smallest genome so far published (81,755 bp) and has a GC content of only 33.3%. It contains 89 potential open reading frames, 43 with baculovirus homologues, 6 identified by conserved domains, and 1 with homology to a densovirus structural protein. Average amino acid identity of homologues ranged from 19.7% with CuniNPV to 24.9% with Spodoptera exigua nucleopolyhedrovirus. The conserved set of baculovirus genes has dropped to 29, since NeleNPV lacks an F protein homologue (ac23/ ld130). NeleNPV contains 12 conserved lepidopteran baculovirus genes, including that for DNA binding protein, late expression factor 11 (lef-11), polyhedrin, occlusion derived virus envelope protein-18 (odv-e18), p40, and p45, but lacks 21 others, including lef-3, me53, immediate early gene-1, lef-6, pp31, odv-e66, few polyhedra 25k, odv-e25, protein kinase-1, fibroblast growth factor, and ubiquitin. The lack of identified baculovirus homologues may be due to difficulties in identification, differences in host-virus interactions, or other genes performing similar functions. Gene parity plots showed limited colinearity of NeleNPV with other baculoviruses, and phylogenetic analysis indicates that NeleNPV may have existed before the lepidopteran nucleopolyhedrovirus and granulovirus divergence. The creation of two new Baculoviridae genera to fit hymenopteran and dipteran baculoviruses may be necessary.

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“…S68462); BmNPV, Bombyx mori NPV (Gomi et al, 1999); BusuNPV, Buzuria suppressaria NPV (Hu et al, 1993); EcobNPV, Ecotropis oliqua NPV (accession no. U95014); EppoMNPV, Epiphyas postvittana MNPV (Hyink et al, 2002); HaSNPV, Helicoverpa armigera SNPV ; HzSNPV, Helicoverpa zea SNPV (Chen et al, 2002); HycuNPV, Hyphantria cunea NPV (accession no. D14573); LdMNPV, Lymantria dispar MNPV (Kuzio et al, 1999); LeseNPV, Leucania separata NPV (accession no.…”

Section: Comparison Of Romnpv and Acmnpv Orfsmentioning

confidence: 99%

Comparative analysis of the genomes of Rachiplusia ou and Autographa californica multiple nucleopolyhedroviruses

Harrison

Bonning

2003

Journal of General Virology

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The Rachiplusia ou multiple nucleopolyhedrovirus (RoMNPV) is a variant of Autographa californica MNPV (AcMNPV) but is significantly more virulent against several major agricultural pests. The genome sequence of the R1 strain of RoMNPV was determined and compared to that of AcMNPV strain C6. The RoMNPV genome is approximately 131?5 kbp with a G+C content of 39?1 %. The homologous repeat regions (hrs) described for AcMNPV-C6 are present in RoMNPV-R1 but the hrs of RoMNPV have fewer palindromic repeats. The RoMNPV-R1 nucleotide sequence is almost completely collinear with the sequence of AcMNPV-C6 and contains homologues of 150 of the 155 ORFs described for AcMNPV-C6. Deletions, insertions and substitutions have resulted in the loss of homologues for AcMNPV ORFs ac2 (bro), ac3 (ctl), ac97, ac121 and ac140 from the RoMNPV genome. The average amino acid sequence identity between RoMNPV and AcMNPV ORFs is 96?1 % and there are differences in promoter motif composition for 23 of these ORFs. Maximum-likelihood analysis of selection pressures on AcMNPV and RoMNPV ORFs indicate that ORFs ro18/ac20-ac21 (arif-1) and ro135/ac143 (odv-e18) have undergone positive selection.

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Whole genome analysis of the Epiphyas postvittana nucleopolyhedrovirus

Cited by 87 publications

References 41 publications

Sequence Analysis and Organization of theNeodiprion abietisNucleopolyhedrovirus Genome

Sequence Analysis and Organization of theNeodiprion abietisNucleopolyhedrovirus Genome

Sequence and Organization of the Neodiprion lecontei Nucleopolyhedrovirus Genome

Comparative analysis of the genomes of Rachiplusia ou and Autographa californica multiple nucleopolyhedroviruses

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