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The Ancient Evolutionary History of Polyomaviruses.

Buck CB, Van Doorslaer K, Peretti A, Geoghegan EM, Tisza MJ, An P, Katz JP, Pipas JM, McBride AA, Camus AC, McDermott AJ, Dill JA, Delwart E, Ng TF, Farkas K, Austin C, Kraberger S, Davison W, Pastrana DV, Varsani A - PLoS Pathog. (2016)

Bottom Line: 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.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.

View Article: PubMed Central - PubMed

Affiliation: Lab of Cellular Oncology, NCI, NIH, Bethesda, Maryland, United States of America.

ABSTRACT
Polyomaviruses 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.

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Related in: MedlinePlus

Midpoint-rooted phylogenetic tree for polyomavirus VP1 protein sequences.Species with different clade affiliations in LT analyses (Fig 3) are indicated in colored bold oblique text. The script ƒ character indicates fragmentary (sub-genomic) sequences. Percent bootstrap values for selected nodes are indicated. A FigTree file containing detailed bootstrap values is provided as S3 File. Scale bar shows one substitution per site.
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ppat.1005574.g004: Midpoint-rooted phylogenetic tree for polyomavirus VP1 protein sequences.Species with different clade affiliations in LT analyses (Fig 3) are indicated in colored bold oblique text. The script ƒ character indicates fragmentary (sub-genomic) sequences. Percent bootstrap values for selected nodes are indicated. A FigTree file containing detailed bootstrap values is provided as S3 File. Scale bar shows one substitution per site.

Mentions: Species with different clade affiliations in VP1 analyses (Fig 4) are indicated in colored bold oblique text. The script ƒ character indicates fragmentary (sub-genomic) sequences. A key to species nicknames, genetic characteristics, and accession numbers is provided in S1 File. Percent bootstrap values are indicated for selected nodes. A FigTree file containing detailed bootstrap values is provided as S2 File. Scale bar shows one substitution per site.


The Ancient Evolutionary History of Polyomaviruses.

Buck CB, Van Doorslaer K, Peretti A, Geoghegan EM, Tisza MJ, An P, Katz JP, Pipas JM, McBride AA, Camus AC, McDermott AJ, Dill JA, Delwart E, Ng TF, Farkas K, Austin C, Kraberger S, Davison W, Pastrana DV, Varsani A - PLoS Pathog. (2016)

Midpoint-rooted phylogenetic tree for polyomavirus VP1 protein sequences.Species with different clade affiliations in LT analyses (Fig 3) are indicated in colored bold oblique text. The script ƒ character indicates fragmentary (sub-genomic) sequences. Percent bootstrap values for selected nodes are indicated. A FigTree file containing detailed bootstrap values is provided as S3 File. Scale bar shows one substitution per site.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4836724&req=5

ppat.1005574.g004: Midpoint-rooted phylogenetic tree for polyomavirus VP1 protein sequences.Species with different clade affiliations in LT analyses (Fig 3) are indicated in colored bold oblique text. The script ƒ character indicates fragmentary (sub-genomic) sequences. Percent bootstrap values for selected nodes are indicated. A FigTree file containing detailed bootstrap values is provided as S3 File. Scale bar shows one substitution per site.
Mentions: Species with different clade affiliations in VP1 analyses (Fig 4) are indicated in colored bold oblique text. The script ƒ character indicates fragmentary (sub-genomic) sequences. A key to species nicknames, genetic characteristics, and accession numbers is provided in S1 File. Percent bootstrap values are indicated for selected nodes. A FigTree file containing detailed bootstrap values is provided as S2 File. Scale bar shows one substitution per site.

Bottom Line: 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.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.

View Article: PubMed Central - PubMed

Affiliation: Lab of Cellular Oncology, NCI, NIH, Bethesda, Maryland, United States of America.

ABSTRACT
Polyomaviruses 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.

Show MeSH
Related in: MedlinePlus