Identification of Adomavirus Virion Proteins

Welch, Nicole L.; Tisza, Michael J.; Starrett, Gabriel J.; Belford, Anna K.; Pastrana, Diana V.; Pang, Yuxi; Schiller, John T.; An, Ping; Cantalupo, Paul G.; Pipas, James M.; Koda, Samantha A.; Subramaniam, Kuttichantran; Waltzek, Thomas B.; Bian, Chao; Shi, Qiong; Ruan, Zhiqiang; Ng, Terry Fei Fan; Buck, Christopher B.

doi:10.1101/341131

Cited by 18 publications

(15 citation statements)

References 49 publications

(6 reference statements)

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“…Although similar horizontal gene transfer events appear to have occurred between various animal-tropic virus families, including adintoviruses and parvoviruses ( Fig. 7 ), adomaviruses and polyomaviruses ( Mizutani et al 2011 , Dill et al 2018 , Welch et al 2020 ) and papillomaviruses and polyomaviruses ( Woolford et al 2007 ), each of these cases appears to represent single ancient event. It may be that the evolution of distinct tissues and organs—or the development of cell-mediated immunity in multicellular animals—placed limits on the likelihood that different virus lineages can co-infect a single cell and productively recombine.…”

Section: Discussionmentioning

confidence: 92%

Adintoviruses: a proposed animal-tropic family of midsize eukaryotic linear dsDNA (MELD) viruses

Starrett¹,

Tisza²,

Welch³

et al. 2021

Virus Evolution

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Polintons (also known as Mavericks) were initially identified as a widespread class of eukaryotic transposons named for their hallmark type B DNA polymerase and retrovirus-like integrase genes. It has since been recognized that many polintons encode possible capsid proteins and viral genome-packaging ATPases similar to those of a diverse range of double-stranded DNA (dsDNA) viruses. This supports the inference that at least some polintons are actually viruses capable of cell-to-cell spread. At present, there are no polinton-associated capsid protein genes annotated in public sequence databases. To rectify this deficiency, we used a data-mining approach to investigate the distribution and gene content of polinton-like elements and related DNA viruses in animal genomic and metagenomic sequence datasets. The results define a discrete family-like clade of viruses with two genus-level divisions. We propose the family name Adintoviridae, connoting similarities to adenovirus virion proteins and the presence of a retrovirus-like integrase gene. Although adintovirus-class PolB sequences were detected in datasets for fungi and various unicellular eukaryotes, sequences resembling adintovirus virion proteins and accessory genes appear to be restricted to animals. Degraded adintovirus sequences are endogenized into the germlines of a wide range of animals, including humans.

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Section: Discussionmentioning

confidence: 92%

Adintoviruses: a proposed animal-tropic family of midsize eukaryotic linear dsDNA (MELD) viruses

Starrett¹,

Tisza²,

Welch³

et al. 2021

Virus Evolution

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“…The presented examples cover a large portion of the animal DNA viruses, but many known and yet unknown families with potentially diverse coevolutionary strategies were not covered. One of these could be the recently discovered 'adomaviruses', which are apparently products of rampant gene exchange between adeno-, papilloma-and polyomaviruses and their ancient and more recent (fish) hosts (Welch et al 2018). As mentioned in the introduction, protein structure based homology searches can reveal such similarities between poorly sequence-conserved proteins and unravel the otherwise hidden evolutionary connections of viruses and their hosts.…”

Section: Discussionmentioning

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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“…Remarkably, a recently discovered unusual group of viruses, "adomaviruses," bridges papillomavirids/polyomavirids with the typical dsDNA viruses of the DJR-MCP supermodule. "Adomaviruses" combine a gene encoding a polyomavirid-like replication protein with the genes encoding the morphogenetic protease and at least one other virion protein with homologs in the dsDNA viruses of the Adenoviridae (225)(226)(227).…”

Section: Double-stranded Dna Virusesmentioning

confidence: 99%

Global Organization and Proposed Megataxonomy of the Virus World

Koonin

Dolja

Krupovìč

et al. 2020

Microbiol Mol Biol Rev

483

477

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SUMMARY Viruses and mobile genetic elements are molecular parasites or symbionts that coevolve with nearly all forms of cellular life. The route of virus replication and protein expression is determined by the viral genome type. Comparison of these routes led to the classification of viruses into seven “Baltimore classes” (BCs) that define the major features of virus reproduction. However, recent phylogenomic studies identified multiple evolutionary connections among viruses within each of the BCs as well as between different classes. Due to the modular organization of virus genomes, these relationships defy simple representation as lines of descent but rather form complex networks. Phylogenetic analyses of virus hallmark genes combined with analyses of gene-sharing networks show that replication modules of five BCs (three classes of RNA viruses and two classes of reverse-transcribing viruses) evolved from a common ancestor that encoded an RNA-directed RNA polymerase or a reverse transcriptase. Bona fide viruses evolved from this ancestor on multiple, independent occasions via the recruitment of distinct cellular proteins as capsid subunits and other structural components of virions. The single-stranded DNA (ssDNA) viruses are a polyphyletic class, with different groups evolving by recombination between rolling-circle-replicating plasmids, which contributed the replication protein, and positive-sense RNA viruses, which contributed the capsid protein. The double-stranded DNA (dsDNA) viruses are distributed among several large monophyletic groups and arose via the combination of distinct structural modules with equally diverse replication modules. Phylogenomic analyses reveal the finer structure of evolutionary connections among RNA viruses and reverse-transcribing viruses, ssDNA viruses, and large subsets of dsDNA viruses. Taken together, these analyses allow us to outline the global organization of the virus world. Here, we describe the key aspects of this organization and propose a comprehensive hierarchical taxonomy of viruses.

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Identification of Adomavirus Virion Proteins

Abstract: 21Adenoviruses, papillomaviruses, and polyomaviruses are collectively known as small DNA 22

Cited by 18 publications

References 49 publications

Adintoviruses: a proposed animal-tropic family of midsize eukaryotic linear dsDNA (MELD) viruses

Adintoviruses: a proposed animal-tropic family of midsize eukaryotic linear dsDNA (MELD) viruses

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

Global Organization and Proposed Megataxonomy of the Virus World

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