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Genomic sequence, organization and characteristics of a new nucleopolyhedrovirus isolated from Clanis bilineata larva.
BMC Genomics 2009; 10:91BG

Abstract

BACKGROUND

Baculoviruses are well known for their potential as biological agents for controlling agricultural and forest pests. They are also widely used as expression vectors in molecular cloning studies. The genome sequences of 48 baculoviruses are currently available in NCBI databases. As the number of sequenced viral genomes increases, it is important for the authors to present sufficiently detailed analyses and annotations to advance understanding of them. In this study, the complete genome of Clanis bilineata nucleopolyhedrovirus (ClbiNPV) has been sequenced and analyzed in order to understand this virus better.

RESULTS

The genome of ClbiNPV contains 135,454 base pairs (bp) with a G+C content of 37%, and 139 putative open reading frames (ORFs) of at least 150 nucleotides. One hundred and twenty-six of these ORFs have homologues with other baculovirus genes while the other 13 are unique to ClbiNPV. The 30 baculovirus core genes are all present in ClbiNPV. Phylogenetic analysis based on the combined pif-2 and lef-8 sequences places ClbiNPV in the Group II Alphabaculoviruses. This result is consistent with the absence of gp64 from the ClbiNPV genome and the presence instead of a fusion protein gene, characteristic of Group II. Blast searches revealed that ClbiNPV encodes a photolyase-like gene sequence, which has a 1-bp deletion when compared with photolyases of other baculoviruses. This deletion disrupts the sequence into two small photolyase ORFs, designated Clbiphr-1 and Clbiphr-2, which correspond to the CPD-DNA photolyase and FAD-binding domains of photolyases, respectively.

CONCLUSION

ClbiNPV belongs to the Group II Alphabaculoviruses and is most closely related to OrleNPV, LdMNPV, TnSNPV, EcobNPV and ChchNPV. It contains a variant DNA photolyase gene, which only exists in ChchNPV, TnSNPV and SpltGV among the baculoviruses.

Authors+Show Affiliations

Institute of Life Sciences, Jiangsu University, Zhenjiang 212013, PR China. zhushanying@ujs.edu.cnNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info available

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

19243590

Citation

Zhu, Shan-Ying, et al. "Genomic Sequence, Organization and Characteristics of a New Nucleopolyhedrovirus Isolated From Clanis Bilineata Larva." BMC Genomics, vol. 10, 2009, p. 91.
Zhu SY, Yi JP, Shen WD, et al. Genomic sequence, organization and characteristics of a new nucleopolyhedrovirus isolated from Clanis bilineata larva. BMC Genomics. 2009;10:91.
Zhu, S. Y., Yi, J. P., Shen, W. D., Wang, L. Q., He, H. G., Wang, Y., ... Wang, W. B. (2009). Genomic sequence, organization and characteristics of a new nucleopolyhedrovirus isolated from Clanis bilineata larva. BMC Genomics, 10, p. 91. doi:10.1186/1471-2164-10-91.
Zhu SY, et al. Genomic Sequence, Organization and Characteristics of a New Nucleopolyhedrovirus Isolated From Clanis Bilineata Larva. BMC Genomics. 2009 Feb 25;10:91. PubMed PMID: 19243590.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Genomic sequence, organization and characteristics of a new nucleopolyhedrovirus isolated from Clanis bilineata larva. AU - Zhu,Shan-Ying, AU - Yi,Jian-Ping, AU - Shen,Wei-De, AU - Wang,Li-Qun, AU - He,Hua-Gang, AU - Wang,Yong, AU - Li,Bing, AU - Wang,Wen-Bing, Y1 - 2009/02/25/ PY - 2008/07/04/received PY - 2009/02/25/accepted PY - 2009/2/27/entrez PY - 2009/2/27/pubmed PY - 2009/3/14/medline SP - 91 EP - 91 JF - BMC genomics JO - BMC Genomics VL - 10 N2 - BACKGROUND: Baculoviruses are well known for their potential as biological agents for controlling agricultural and forest pests. They are also widely used as expression vectors in molecular cloning studies. The genome sequences of 48 baculoviruses are currently available in NCBI databases. As the number of sequenced viral genomes increases, it is important for the authors to present sufficiently detailed analyses and annotations to advance understanding of them. In this study, the complete genome of Clanis bilineata nucleopolyhedrovirus (ClbiNPV) has been sequenced and analyzed in order to understand this virus better. RESULTS: The genome of ClbiNPV contains 135,454 base pairs (bp) with a G+C content of 37%, and 139 putative open reading frames (ORFs) of at least 150 nucleotides. One hundred and twenty-six of these ORFs have homologues with other baculovirus genes while the other 13 are unique to ClbiNPV. The 30 baculovirus core genes are all present in ClbiNPV. Phylogenetic analysis based on the combined pif-2 and lef-8 sequences places ClbiNPV in the Group II Alphabaculoviruses. This result is consistent with the absence of gp64 from the ClbiNPV genome and the presence instead of a fusion protein gene, characteristic of Group II. Blast searches revealed that ClbiNPV encodes a photolyase-like gene sequence, which has a 1-bp deletion when compared with photolyases of other baculoviruses. This deletion disrupts the sequence into two small photolyase ORFs, designated Clbiphr-1 and Clbiphr-2, which correspond to the CPD-DNA photolyase and FAD-binding domains of photolyases, respectively. CONCLUSION: ClbiNPV belongs to the Group II Alphabaculoviruses and is most closely related to OrleNPV, LdMNPV, TnSNPV, EcobNPV and ChchNPV. It contains a variant DNA photolyase gene, which only exists in ChchNPV, TnSNPV and SpltGV among the baculoviruses. SN - 1471-2164 UR - https://www.unboundmedicine.com/medline/citation/19243590/Genomic_sequence_organization_and_characteristics_of_a_new_nucleopolyhedrovirus_isolated_from_Clanis_bilineata_larva_ L2 - https://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-10-91 DB - PRIME DP - Unbound Medicine ER -