Comparative analysis of the complete genome sequences of Helicoverpa zea and Helicoverpa armigera single-nucleocapsid nucleopolyhedroviruses

Chen, Xinwen; Zhang, W.-J.; Wong, Jeffrey A.; Chun, Gary; Lu, Albert; McCutchen, B. F.; Presnail, J. K.; Herrmann, Robert O.; Dolan, M. Eileen; Tingey, Scott V.; Hu, Zhihong; Vlak, Just M.

doi:10.1099/0022-1317-83-3-673

Cited by 105 publications

(66 citation statements)

References 41 publications

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“…The NeseNPV basic DNA binding protein p6.9 (nese36) had a 56% amino acid identity with AdorGV p6.9 but was not associated by BLAST with any other baculovirus p6.9 gene, even though it had a high arginine (29%) and serine (27%) concentration and the RRPGRPR conserved motif identified in other p6.9 proteins (76). The size of the predicted NeseNPV p6.9 protein was 86 amino acids (aa), bigger that all other p6.9 proteins except for those of HaSNPV (76) and HzSNPV (14). Nese36, however, had a high amino acid identity with splicing factor proteins from organisms such as insects, mouse, and human.…”

Section: Resultsmentioning

confidence: 99%

Sequence Analysis of the Genome of the Neodiprion sertifer Nucleopolyhedrovirus

Garcia-Maruniak

Maruniak

Zanotto

et al. 2004

J Virol

109

111

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The genome of the Neodiprion sertifer nucleopolyhedrovirus (NeseNPV), which infects the European pine sawfly, N. sertifer (Hymenoptera: Diprionidae), was sequenced and analyzed. The genome was 86,462 bp in size. The C؉G content of 34% was lower than that of the majority of baculoviruses. A total of 90 methionineinitiated open reading frames (ORFs) with more than 50 amino acids and minimal overlapping were found. From those, 43 ORFs were homologous to other baculovirus ORFs, and 29 of these were from the 30 conserved core genes among all baculoviruses. A NeseNPV homolog to the ld130 gene, which is present in all other baculovirus genomes sequenced to date, could not be identified. Six NeseNPV ORFs were similar to non-baculovirus-related genes, one of which was a trypsin-like gene. Only one iap gene, containing a single BIR motif and a RING finger, was found in NeseNPV. Two NeseNPV ORFs (nese18 and nese19) were duplicates transcribed in opposite orientations from each other. NeseNPV did not have an AcMNPV ORF 2 homolog characterized as the baculovirus repeat ORF (bro). Six homologous regions (hrs) were located within the NeseNPV genome, each containing small palindromes embedded within direct repeats. A phylogenetic analysis was done to root the tree based upon the sequences of DNA polymerase genes of NeseNPV, 23 other baculoviruses, and other phyla. Baculovirus phylogeny was then constructed with 29 conserved genes from 24 baculovirus genomes. Culex nigripalpus nucleopolyhedrovirus (CuniNPV) was the most distantly related baculovirus, branching to the hymenopteran NeseNPV and the lepidopteran nucleopolyhedroviruses and granuloviruses.

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Section: Resultsmentioning

confidence: 99%

Sequence Analysis of the Genome of the Neodiprion sertifer Nucleopolyhedrovirus

Garcia-Maruniak

Maruniak

Zanotto

et al. 2004

J Virol

109

111

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“…One of these conserved ORFs, sf130/ac29, was almost entirely contained within a larger (Nakai et al, 2003); ClbiNPV (GenBank accession no. DQ504428); Lymantria dispar MNPV (LdMNPV-Cl5-6; Kuzio et al, 1999); HzSNPV (Chen et al, 2002); HearNPV isolates C1 (Zhang et al, 2005) and G4 ; AcMNPV-C6 (Ayres et al, 1994); SpltNPV-G2 (Pang et al, 2001); and CpGV-M1 (Luque et al, 2001). See text for definitions.…”

Section: Gene Content and Ordermentioning

confidence: 99%

Genomic sequence analysis of a fast-killing isolate of Spodoptera frugiperda multiple nucleopolyhedrovirus

Harrison

Puttler

Popham

2008

Journal of General Virology

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Six clones of Spodoptera frugiperda multiple nucleopolyhedrovirus (SfMNPV) were plaquepurified from field isolates collected in Missouri, USA. In bioassays, four of the plaque-purified isolates killed neonate S. frugiperda larvae more rapidly than the field isolates from which they were derived, with LT 50 values (mean time to kill 50 % of the test larvae) ranging from 34.4 to 49.7 h post-infection. The complete genomic sequence of one of these isolates, SfMNPV-3AP2, was determined and analysed. The SfMNPV-3AP2 genome was 131 330 bp with a G+C content of 40.2 %. A total of 144 open reading frames (ORFs) was identified and examined, including the set of 62 genes in common among lepidopteran nucleopolyhedrovirus genomes. Comparisons of ORF content, order and predicted amino acid sequences with other nucleopolyhedoviruses indicated that SfMNPV is part of a cluster of viruses within NPV group II that includes NPVs isolated from Spodoptera, Agrotis and Mamestra host species. SfMNPV-3AP2 shared a high degree of nucleotide sequence similarity with partial sequences from other SfMNPV isolates. Comparison of the SfMNPV-3AP2 genome sequence with a partial sequence from a Brazilian isolate of SfMNPV revealed that SfMNPV-3AP2 contained a deletion that removed parts of ORF sf27 and the gene encoding ecdysteroid UDP-glucosyltransferase (egt). An examination of the egt region in the other isolates revealed that the other five SfMNPV clones also contained deletions of varying length in this region. Variant genotypes with deletions extending around the egt gene have been reported previously from a Nicaraguan field isolate of SfMNPV, suggesting that the presence of such variants is a common feature of SfMNPV populations.

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“…The Pink coloured bars indicate the location and relative size of the five homologous regions (hrs) and a direct repeat sequence (dr) genes were found in G4 genome, viz., ORF59 (bro-a) and ORF60 (bro-b) between hr2 and hr3. It has previously been suggested that hr2 and hr3 comprised a single hr before the insertion of bro genes occurred between them [3]. Our comparative analysis of bro gene sequences indicated that the NNg1 bro-b gene, the third bro gene present between hr2 and hr3, was generated through duplication of the bro-c gene, thus suggesting that this region was a hot spot for recombination.…”

Section: Analysis Of Homologous Regions (Hrs)mentioning

confidence: 81%

Whole genome sequence and comparative genomic sequence analysis of Helicoverpa armigera nucleopolyhedrovirus (HearNPV-L1) isolated from India

et al. 2017

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The whole genome of Helicoverpa armigera nucleopolyhedrovirus (HearNPV) from India, HearNPV-L1, was sequenced and analyzed, with a view to look for genes and/or nucleotide sequences that might be involved in the differences and virulence among other HearNPVs sequenced from other countries like SP1A (Spain), NNg1 (Kenya) and G4 (China). The entire nucleotide sequence of the HearNPV-L1 genome was 136,740 bp in length having GC content of 39.19% and contained 113 ORFs that could encode polypeptides with more than 50 amino acids (GenBank accession number KT013224). Two ORFs, viz., ORF 18 (300 bp) and ORF 19 (401 bp) identified were unique in HearNPV-L1 genome. Most of the HearNPV-L1 ORFs showed high similarity to NNg1, SP1A and G4 genomes. HearNPV-L1 genome contains 5 h (hr1-hr5), these regions were found 84-100% similar to hr region of NNg1, SP1A and G4 genomes. A total of four bro genes were observed in HearNPV-L1 genome, of which broa gene was 12 and 351 bp bigger than SP1A and G4 bro-a, respectively, while bro-b was 15 bp bigger SP1A and NNg1 bro-b, whereas 593 bp shorter than G4 bro-b, while bro-c was 12 bp shorter than NNg1, however bro-c was absent in G4 genome. HearNPV-L1 bro-d was 100% homologous to bro-d of SP1A, NNg1 and G4 genomes, respectively. The comparative analysis of HearNPV-L1 genome indicated that there are several other putative genes and nucleotide sequences that may be responsible for insecticidal activity in HearNPV-L1 isolate, however, further functional analysis of the hypothetical (putative) genes may help identifying the genes that are crucial for the virulence and insecticidal activity.

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Comparative analysis of the complete genome sequences of Helicoverpa zea and Helicoverpa armigera single-nucleocapsid nucleopolyhedroviruses

Cited by 105 publications

References 41 publications

Sequence Analysis of the Genome of the Neodiprion sertifer Nucleopolyhedrovirus

Sequence Analysis of the Genome of the Neodiprion sertifer Nucleopolyhedrovirus

Genomic sequence analysis of a fast-killing isolate of Spodoptera frugiperda multiple nucleopolyhedrovirus

Whole genome sequence and comparative genomic sequence analysis of Helicoverpa armigera nucleopolyhedrovirus (HearNPV-L1) isolated from India

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