The Ancient Evolutionary History of Polyomaviruses

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TitleThe Ancient Evolutionary History of PolyomavirusesAbstractPolyomaviruses are a family of DNA tumor viruses that are known to infect mammals and birds. To investigate the deeper evolutionary history of the family, we used a combination of viral metagenomics, bioinformatics, and structural modeling approaches to identify and characterize polyomavirus sequences associated with fish and arthropods. Analyses drawing upon the divergent new sequences indicate that polyomaviruses have been gradually co-evolving with their animal hosts for at least half a billion years. Phylogenetic analyses of individual polyomavirus genes suggest that some modern polyomavirus species arose after ancient recombination events involving distantly related polyomavirus lineages. The improved evolutionary model provides a useful platform for developing a more accurate taxonomic classification system for the viral family Polyomaviridae.AcknowledgementsThe authors are grateful to Efrem Lim, Matt Daugherty, and other members of the ICTV Polyomavirus Study Group for an engaging and useful series of discussions about key issues in polyomavirus taxonomy. This study utilized the high-performance computational capabilities of the Helix Systems at the National Institutes of Health, Bethesda, MD (http://helix.nih.gov). Funding: This work was funded in part by the National Institutes of Health Intramural Research Program, with support from the National Cancer Institute Center for Cancer Research. AAM and KVD were funded by the Intramural Research Program of the National Institute of Allergy and Infectious Disease. Trematomus pennellii were collected in the Antarctic under the 2011/08R animal ethics permit and the field work was supported by a grant (K057) awarded to WD from Antarctica New Zealand. The Trematomus pennelli molecular work was supported by personal funds of AV. The structural analyses for the large T antigens by PA, JPK and JMP were supported by an R21 grant AI109339 awarded to JMP by National Institute of Allergy and Infectious Diseases. AP is supported by a grant from the Italian Foundation for Cancer Research (FIRC). Aside from the contribution of personal funds by AV, other funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.

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1st AuthorBuck, C.AuthorBuck, C.Van Doorslaer, K.Peretti, A.Geoghegan, E.Tisza, M.An, P.Katz, J.Pipas, J.McBride, A.Camus, A.McDermott, A.Dill, J.Delwart, E.Ng, T.Farkas, K.Austin, C.Kraberger, S.Davison, W.Pastrana, D.Varsani, A.Year2016JournalPLoS PathogensVolume12Number4DOI10.1371/journal.ppat.1005574URLhttps://www.scopus.com/inward/recor.....ac5861174be7eeca7627940bcKeywordsarthropodbioinformaticsDNA structuredrawingfamilyfamily studymetagenomicsphylogenyPolyomavirusspecies, rank5

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TypeArticleCitationBuck, C., Van Doorslaer, K., Peretti, A., Geoghegan, E., Tisza, M., An, P., Katz, J., Pipas, J., McBride, A., Camus, A., McDermott, A., Dill, J., Delwart, E., Ng, T., Farkas, K., Austin, C., Kraberger, S., Davison, W., Pastrana, D. and Varsani, A. (2016). The Ancient Evolutionary History of Polyomaviruses. PLoS Pathogens, 12(4) IdentifierBuck2016Relevancerank5