Genome Sequence of a Fish-Associated Polyomavirus, Black Sea Bass (Centropristis striata) Polyomavirus 1

Peretti, Alberto; Fitzgerald, Peter; Bliskovsky, Valery; Pastrana, Diana V.; Buck, Christopher B.

doi:10.1128/genomea.01476-14

Cited by 37 publications

(21 citation statements)

References 10 publications

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“…The respective lineages may represent promising opportunities to test whether the dominance of codivergence events can be generalized throughout the PyV family tree. Regardless, the findings reported here lend support to the hypothesis of an ancient association of PyV and their animal hosts, which the well-known separation of mammal and bird PyV and the recent discovery of the first fish and arthropod PyV already pinpointed (6,8,57). In a recently published phylogeny based on the large T antigen, the root age of the family tree was more than 11 times the age of the MRCA of MCPyV-related viruses (20).…”

Section: Discussionsupporting

confidence: 83%

Assessing Host-Virus Codivergence for Close Relatives of Merkel Cell Polyomavirus Infecting African Great Apes

Madinda

Ehlers

Wertheim

et al. 2016

J Virol

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It has long been hypothesized that polyomaviruses (PyV; family Polyomaviridae) codiverged with their animal hosts. In contrast, recent analyses suggested that codivergence may only marginally influence the evolution of PyV. We reassess this question by focusing on a single lineage of PyV infecting hominine hosts, the Merkel cell polyomavirus (MCPyV) lineage. By characterizing the genetic diversity of these viruses in seven African great ape taxa, we show that they exhibit very strong host specificity. Reconciliation analyses identify more codivergence than noncodivergence events. In addition, we find that a number of host and PyV divergence events are synchronous. Collectively, our results support codivergence as the dominant process at play during the evolution of the MCPyV lineage. More generally, our results add to the growing body of evidence suggesting an ancient and stable association of PyV and their animal hosts. IMPORTANCEThe processes involved in viral evolution and the interaction of viruses with their hosts are of great scientific interest and public health relevance. It has long been thought that the genetic diversity of double-stranded DNA viruses was generated over long periods of time, similar to typical host evolutionary timescales. This was also hypothesized for polyomaviruses (family Polyomaviridae), a group comprising several human pathogens, but this remains a point of controversy. Here, we investigate this question by focusing on a single lineage of polyomaviruses that infect both humans and their closest relatives, the African great apes. We show that these viruses exhibit considerable host specificity and that their evolution largely mirrors that of their hosts, suggesting that codivergence with their hosts played a major role in their diversification. Our results provide statistical evidence in favor of an association of polyomaviruses and their hosts over millions of years.

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Section: Discussionsupporting

confidence: 83%

Assessing Host-Virus Codivergence for Close Relatives of Merkel Cell Polyomavirus Infecting African Great Apes

Madinda

Ehlers

Wertheim

et al. 2016

J Virol

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“…PyVs are known to infect mammals and birds, but using viral metagenomics, PyVs were identified and characterised also in fish and arthropods (Buck et al 2016;Peretti et al 2015). Analysing the available divergent sequence data of PyVs, results indicate that PyVs have been progressively coevolving with their hosts for about half billion years.…”

Section: Polyomavirusesmentioning

confidence: 99%

Virus–Host Coevolution with a Focus on Animal and Human DNA Viruses

et al. 2019

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Viruses have been infecting their host cells since the dawn of life, and this extremely long-term coevolution gave rise to some surprising consequences for the entire tree of life. It is hypothesised that viruses might have contributed to the formation of the first cellular life form, or that even the eukaryotic cell nucleus originates from an infection by a coated virus. The continuous struggle between viruses and their hosts to maintain at least a constant fitness level led to the development of an unceasing arms race, where weapons are often shuttled between the participants. In this literature review we try to give a short insight into some general consequences or traits of virus-host coevolution, and after this we zoom in to the viral clades of adenoviruses, herpesviruses, nucleo-cytoplasmic large DNA viruses, polyomaviruses and, finally, circoviruses.

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“…These viruses are common in birds and mammals, and recently the first complete fish polyomavirus genome has been published (Johne et al, 2011;Peretti et al, 2015). Their genome can †These authors contributed equally to this work.…”

Section: Introductionmentioning

confidence: 99%

Characterization of the non-coding control region of polyomavirus KI isolated from nasopharyngeal samples from patients with respiratory symptoms or infection and from blood from healthy blood donors in Norway

Song

Ghelue

Ludvigsen

et al. 2016

Journal of General Virology

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Seroepidemiological studies showed that the human polyomavirus KI (KIPyV) is common in the human population, with age-specific seroprevalence ranging from 40-90 %. Genome epidemiological analyses demonstrated that KIPyV DNA is predominantly found in respiratory tract samples of immunocompromised individuals and children suffering from respiratory diseases, but viral sequences have also been detected in brain, tonsil, lymphoid tissue studies, plasma, blood and faeces. Little is known about the sequence variation in the non-coding control region of KIPyV variants residing in different sites of the human body and whether specific strains dominate in certain parts of the world. In this study, we sequenced the non-coding control region (NCCR) of naturally occurring KIPyV variants in nasopharyngeal samples from patients with respiratory symptoms or infection and in blood from healthy donors in Norway. In total 86 sequences were obtained, 44 of which were identical to the original isolated Stockholm 60 variant. The remaining NCCRs contained one or several mutations, none of them previously reported. The same mutations were detected in NCCRs amplified from blood and nasopharyngeal samples. Some patients had different variants in their specimens. Transient transfection studies in HEK293 cells with a luciferase reporter plasmid demonstrated that some single mutations had a significant effect on the relative early and late promoter strength compared with the Stockholm 60 promoter. The effect of the NCCR mutations on viral replication and possible virulence properties remains to be established. INTRODUCTIONPolyomaviruses are non-enveloped viruses with a circular dsDNA genome of approximately 5000 bp. These viruses are common in birds and mammals, and recently the first complete fish polyomavirus genome has been published (Johne et al., 2011;Peretti et al., 2015). Their genome can †These authors contributed equally to this work.The GenBank/EMBL/DDBJ accession numbers for the sequences of the mutant NCCRs are KU564911-564952. ã 2016 The Authors Printed in Great Britain 1647Journal of General Virology (2016), 97, 1647-1657 DOI 10.1099 be divided into three functional regions: the early region, encoding regulatory proteins required for transcription and viral DNA replication; the late region, encoding the capsid proteins; and interspersed between these the non-coding control region (NCCR), encompassing the origin of replication and the promoters controlling transcription of the early and late genes, respectively (DeCaprio & Garcea, 2013). The first human polyomaviruses, BK and JC, were detected using histology or cytology followed by electron microscopy, and their existence was reported in 1971 (Gardner et al., 1971; Padgett et al., 1971). The development of new techniques such as high-throughput sequencing, rolling circle amplification and polymerase chain reaction with degenerate primers has led in recent years to the discovery of new polyomaviruses that can infect humans. KI polyomavirus, named after the researchers' instit...

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Genome Sequence of a Fish-Associated Polyomavirus, Black Sea Bass (Centropristis striata) Polyomavirus 1

Cited by 37 publications

References 10 publications

Assessing Host-Virus Codivergence for Close Relatives of Merkel Cell Polyomavirus Infecting African Great Apes

Assessing Host-Virus Codivergence for Close Relatives of Merkel Cell Polyomavirus Infecting African Great Apes

Virus–Host Coevolution with a Focus on Animal and Human DNA Viruses

Characterization of the non-coding control region of polyomavirus KI isolated from nasopharyngeal samples from patients with respiratory symptoms or infection and from blood from healthy blood donors in Norway

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