Structure and evolution of a proviral locus of Glyptapanteles indiensis bracovirus

Desjardins, C. A., Gundersen-Rindal, D. E., Hostetler, J. B., Tallon, L. J., Fuester, R. W., Schatz, M. C., Pedroni, M. J., Fadrosh, D. W., Haas, B. J., Toms, B. S., Chen, D., Nene, V. (2007) Structure and evolution of a proviral locus of Glyptapanteles indiensis bracovirus. BMC Microbiology, 7. ISSN 14712180 (ISSN)

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URL: http://www.ncbi.nlm.nih.gov/pubmed/17594494
DOI: 10.1186/1471-2180-7-61

Abstract

Background. Bracoviruses (BVs), a group of double-stranded DNA viruses with segmented genomes, are mutualistic endosymbionts of parasitoid wasps. Virus particles are replication deficient and are produced only by female wasps from proviral sequences integrated into the wasp genome. Virus particles are injected along with eggs into caterpillar hosts, where viral gene expression facilitates parasitoid survival and therefore perpetuation of proviral DNA. Here we describe a 223 kbp region of Glyptapanteles indiensis genomic DNA which contains a part of the G. indiensis bracovirus (GiBV) proviral genome. Results. Eighteen of ∼24 GiBV viral segment sequences are encoded by 7 non-overlapping sets of BAC clones, revealing that some proviral segment sequences are separated by long stretches of intervening DNA. Two overlapping BACs, which contain a locus of 8 tandemly arrayed proviral segments flanked on either side by ∼35 kbp of non-packaged DNA, were sequenced and annotated. Structural and compositional analyses of this cluster revealed it exhibits a G+C and nucleotide composition distinct from the flanking DNA. By analyzing sequence polymorphisms in the 8 GiBV viral segment sequences, we found evidence for widespread selection acting on both protein-coding and non-coding DNA. Comparative analysis of viral and proviral segment sequences revealed a sequence motif involved in the excision of proviral genome segments which is highly conserved in two other bracoviruses. Conclusion. Contrary to current concepts of bracovirus proviral genome organization our results demonstrate that some but not all GiBV proviral segment sequences exist in a tandem array. Unexpectedly, non-coding DNA in the 8 proviral genome segments which typically occupies ∼70% of BV viral genomes is under selection pressure suggesting it serves some function(s). We hypothesize that selection acting on GiBV proviral sequences maintains the genetic island-like nature of the cluster of proviral genome segments described herein. In contrast to large differences in the predicted gene composition of BV genomes, sequences that appear to mediate processes of viral segment formation, such as proviral segment excision and circularization, appear to be highly conserved, supporting the hypothesis of a single origin for BVs. © 2007 Desjardins et al; licensee BioMed Central Ltd.

Item Type: Paper
Uncontrolled Keywords: genomic DNA virus DNA article Bracovirus comparative study DNA flanking region DNA virus gene locus glyptapanteles indiensis nonhuman nucleotide sequence protein motif sequence analysis virus genome virus morphology animal chemistry DNA base composition DNA sequence genetic polymorphism genetics genome male molecular evolution molecular genetics Polydnaviridae provirus virology wasp DNA viruses Glyptapanteles indiensis bracovirus Animals Base Composition DNA, Viral Evolution, Molecular Genome, Insect Genome, Viral Molecular Sequence Data Polymorphism, Genetic Proviruses Sequence Analysis, DNA Wasps
Subjects: bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification
bioinformatics > genomics and proteomics > genetics & nucleic acid processing
bioinformatics > genomics and proteomics
organism description > bacteria
organism description > virus
CSHL Authors:
Communities: CSHL labs > Schatz lab
Depositing User: Matt Covey
Date: 2007
Date Deposited: 15 Mar 2013 17:55
Last Modified: 15 Mar 2013 17:55
PMCID: PMC1919376
Related URLs:
URI: http://repository.cshl.edu/id/eprint/27836

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