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[[File:Cowpox virus.jpg|thumb|upright=1.2|''[[Orthopoxvirus]]'' particles]]
A '''DNA virus''' is a [[virus]] that has a [[genome]] made of [[deoxyribonucleic acid]] (DNA) that is replicated by a [[DNA polymerase]]. They can be divided between those that have two strands of DNA in their genome, called double-stranded DNA (dsDNA) viruses, and those that have one strand of DNA in their genome, called single-stranded DNA (ssDNA) viruses. dsDNA viruses primarily belong to two [[Realm (virology)|realms]]: ''[[Duplodnaviria]]'' and ''[[Varidnaviria]]'', and ssDNA viruses are almost exclusively assigned to the realm ''[[Monodnaviria]]'', which also includes some dsDNA viruses. Additionally, many DNA viruses are unassigned to higher taxa.
DNA viruses are ubiquitous worldwide, especially in marine environments where they form an important part of marine ecosystems, and infect both [[prokaryote]]s and [[eukaryote]]s. They appear to have multiple origins, as viruses in ''Monodnaviria'' appear to have emerged from archaeal and bacterial [[plasmid]]s on multiple occasions, though the origins of ''Duplodnaviria'' and ''Varidnaviria'' are less clear.
==Baltimore classification==
The [[Baltimore classification]] system is used to group viruses together based on their manner of [[messenger RNA]] (mRNA) synthesis and is often used alongside standard virus taxonomy, which is based on evolutionary history. DNA viruses constitute two Baltimore groups: Group I: double-stranded DNA viruses, and Group II: single-stranded DNA viruses. While Baltimore classification is chiefly based on [[Transcription (biology)|transcription]] of mRNA, viruses in each Baltimore group also typically share their manner of replication. Viruses in a Baltimore group do not necessarily share genetic relation or morphology.<ref name=lostroh11 >[[#
===<span class="anchor" id="Group I: dsDNA viruses"></span>Double-stranded DNA viruses===
The first Baltimore group of DNA viruses are those that have a double-stranded DNA genome. All dsDNA viruses have their mRNA synthesized in a three-step process. First, a [[transcription preinitiation complex]] binds to the DNA upstream of the site where transcription begins, allowing for the recruitment of a host [[RNA polymerase]]. Second, once the RNA polymerase is recruited, it uses the negative strand as a template for synthesizing mRNA strands. Third, the RNA polymerase terminates transcription upon reaching a specific signal, such as a [[polyadenylation]] site.<ref name=dsdna >{{cite web|title=dsDNA templated transcription|url=https://viralzone.expasy.org/1942|website=ViralZone|publisher=Swiss Institute of Bioinformatics|
dsDNA viruses make use of several mechanisms to replicate their genome. Bidirectional replication,
dsDNA viruses can be subdivided between those that replicate in the [[cell nucleus]], and as such are relatively dependent on host cell machinery for transcription and replication, and those that replicate in the [[cytoplasm]], in which case they have evolved or acquired their own means of executing transcription and replication.<ref name=cann122 >[[#
===Single-stranded DNA viruses===
[[File:Canines_Parvovirus.jpg|thumb|The [[canine parvovirus]] is an ssDNA virus.]]
The second Baltimore group of DNA viruses are those that have a single-stranded DNA genome. ssDNA viruses have the same manner of transcription as dsDNA viruses. However, because the genome is single-stranded, it is first made into a double-stranded form by a [[DNA polymerase]] upon entering a host cell. mRNA is then synthesized from the double-stranded form. The double-stranded form of ssDNA viruses may be produced either directly after entry into a cell or as a consequence of replication of the viral genome.<ref name=ssdna >{{cite web|title=ssDNA Rolling circle|url=https://viralzone.expasy.org/1941|website=ViralZone|publisher=Swiss Institute of Bioinformatics|
Most ssDNA viruses contain circular genomes that are replicated via rolling circle replication (RCR). ssDNA RCR is initiated by an [[endonuclease]] that bonds to and cleaves the positive strand, allowing a DNA polymerase to use the negative strand as a template for replication. Replication progresses in a loop around the genome by means of extending the 3'-end of the positive strand, displacing the prior positive strand, and the endonuclease cleaves the positive strand again to create a standalone genome that is [[Ligation (molecular biology)|ligated]] into a circular loop. The new ssDNA may be packaged into virions or replicated by a DNA polymerase to form a double-stranded form for transcription or continuation of the replication cycle.<ref name=ssdna /><ref name=rampersad61 >[[#
[[Parvovirus]]es contain linear ssDNA genomes that are replicated via [[rolling hairpin replication]] (RHR)
Nearly all ssDNA viruses have positive sense genomes, but a few exceptions and peculiarities exist. The family ''[[Anelloviridae]]'' is the only ssDNA family whose members have negative sense genomes, which are circular.<ref name=fermin40 /> Parvoviruses, as previously mentioned, may package either the positive or negative sense strand into virions.<ref name=hairpin /> Lastly, [[Bidensovirus|bidnavirus]]es package both the positive and negative linear strands.<ref name=fermin40 /><ref name=bidna >{{cite web|title=Bidnaviridae|url=https://viralzone.expasy.org/2957|website=ViralZone|publisher=Swiss Institute of Bioinformatics|
==ICTV classification==
The [[International Committee on Taxonomy of Viruses]] (ICTV) oversees virus taxonomy and organizes viruses at the basal level at the rank of realm. Virus realms correspond to the rank of [[Domain (biology)|domain]] used for cellular life but differ in that viruses within a realm do not necessarily share [[common ancestry]], nor do the realms share common ancestry with each other. As such, each virus realm represents at least one instance of viruses coming into existence. Within each realm, viruses are grouped together based on shared characteristics that are [[highly conserved]] over time.<ref name=exec >{{cite journal|author=International Committee on Taxonomy of Viruses Executive Committee|date=May 2020|title=The New Scope of Virus Taxonomy: Partitioning the Virosphere Into 15 Hierarchical Ranks
===''Duplodnaviria''===
[[File:
''[[Duplodnaviria]]'' contains dsDNA viruses that encode a major capsid protein (MCP) that has the HK97 fold. Viruses in the realm also share a number of other characteristics involving the capsid and capsid assembly, including an icosahedral capsid shape and a terminase enzyme that packages viral DNA into the capsid during assembly. Two groups of viruses are included in the realm: tailed bacteriophages, which infect prokaryotes and are assigned to the order ''[[Caudovirales]]'', and herpesviruses, which infect animals and are assigned to the order ''[[Herpesvirales]]''.<ref name=duplo />
''Duplodnaviria'' is
The relation between caudoviruses and herpesviruses is
===''Monodnaviria''===
''[[Monodnaviria]]'' contains ssDNA viruses that encode an [[endonuclease]] of the HUH superfamily that initiates [[rolling circle replication]] and all other viruses descended from such viruses. The prototypical members of the realm are called CRESS-DNA viruses and have circular ssDNA genomes. ssDNA viruses with linear genomes are descended from them, and in turn some dsDNA viruses with circular genomes are descended from linear ssDNA viruses.<ref name=mono />
Viruses in ''Monodnaviria'' appear to have emerged on multiple occasions from archaeal and bacterial [[plasmid]]s, a type of extra-chromosomal DNA molecule that self-replicates inside its host. The kingdom ''Shotokuvirae'' in the realm likely emerged from recombination events that merged the DNA of these plasmids and complementary DNA encoding the capsid proteins of RNA viruses.<ref name=mono /><ref>{{cite journal|vauthors=Kazlauskas D, Varsani A, Koonin EV, Krupovic M|date=31 July 2019|title=Multiple Origins of Prokaryotic and Eukaryotic Single-Stranded DNA Viruses From Bacterial and Archaeal Plasmids
CRESS-DNA viruses include three kingdoms that infect prokaryotes: ''[[Loebvirae]]'', ''[[Sangervirae]]'', and ''[[Trapavirae]]''. The kingdom ''[[Shotokuvirae]]'' contains eukaryotic CRESS-DNA viruses and the atypical members of ''Monodnaviria''.<ref name=mono /> Eukaryotic monodnaviruses are associated with many diseases, and they include [[papillomavirus]]es and [[polyomavirus]]es, which cause many cancers,<ref>{{cite web|title=Papillomaviridae|url=https://viralzone.expasy.org/5|website=ViralZone|publisher=Swiss Institute of Bioinformatics|
===''Varidnaviria''===
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Varidnaviria is either monophyletic or polyphyletic and may predate the LUCA. The kingdom ''Bamfordvirae'' is likely derived from the other kingdom ''Helvetiavirae'' via [[Fusion gene|fusion]] of two MCPs to have an MCP with two jelly roll folds instead of one. The single jelly roll (SJR) fold MCPs of ''Helvetiavirae'' show a relation to a group of proteins that contain SJR folds, including the [[Cupin superfamily]] and [[nucleoplasmin]]s.<ref name=vari /><ref name=krupovic /><ref name=luca />
Marine viruses in ''Varidnaviria'' are ubiquitous worldwide and, like tailed bacteriophages, play an important role in marine ecology.<ref>{{cite journal|vauthors=Kauffman KM, Hussain FA, Yang J, Arevalo P, Brown JM, Chang WK, VanInsberghe D, Elsherbini J, Sharma RS, Cutler MB, Kelly L, Polz MF|date=1 February 2018|title=A Major Lineage of Non-Tailed dsDNA Viruses as Unrecognized Killers of Marine Bacteria
===
dsDNA viruses are classified into three realms and include many taxa that are unassigned to a realm:
* All viruses in ''Duplodnaviria'' are dsDNA viruses.<ref name=duplo />
* In ''Monodnaviria'', members of the class ''[[Papovaviricetes]]'' are dsDNA viruses.<ref name=mono >{{cite web|vauthors=Koonin EV, Dolja VV, Krupovic M, Varsani A, Wolf YI, Yutin N, Zerbini M, Kuhn JH|title=Create a megataxonomic framework, filling all principal taxonomic ranks, for ssDNA viruses|url=https://
* All viruses in ''Varidnaviria'' are dsDNA viruses.<ref name=vari />
* The following taxa that are unassigned to a realm exclusively contain dsDNA viruses:<ref name=vari />
** Orders: ''[[Ligamenvirales]]''
** Families: ''[[Ampullaviridae]]'', ''[[Baculoviridae]]'', ''[[Bicaudaviridae]]'', ''[[Clavaviridae]]'', ''[[Fuselloviridae]]'', ''[[Globuloviridae]]'', ''[[Guttaviridae]]'', ''[[Halspiviridae]]'', ''[[Hytrosaviridae]]'', ''[[Nimaviridae]]'', ''[[Nudiviridae]]'', ''[[Ovaliviridae]]'', ''[[Plasmaviridae]]'', ''[[Polydnaviridae]]'', ''[[Portogloboviridae]]'', ''[[Thaspiviridae]]'', ''[[Tristromaviridae]]''
** Genera: ''[[Dinodnavirus]]'', ''[[Rhizidiovirus]]''
ssDNA viruses are classified into one realm and include several families that are unassigned to a realm:
* In ''Monodnaviria'', all members except viruses in ''Papovaviricetes'' are ssDNA viruses.<ref name=mono />
* The unassigned families ''[[Anelloviridae]]'' and ''[[Spiraviridae]]'' are ssDNA virus families.<ref name=mono />
* Viruses in the family ''[[Finnlakeviridae]]'' contain ssDNA genomes. ''Finnlakeviridae'' is unassigned to a realm but is a proposed member of ''Varidnaviria''.<ref name=vari />
==References==
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===Bibliography===
{{Refbegin}}
▲<span id="cann" class="citation" >{{cite book|last=Cann|first=A.|author-link=|date=2015|title=Principles of Molecular Virology|url=|format=|location=|publisher=Elsevier|pages=122–127|isbn=978-0128019559}}</span>
▲<span id="fermin" class="citation" >{{cite book|last=Fermin|first=G.|author-link=|date=2018|title=Viruses: Molecular Biology, Host Interactions and Applications to Biotechnology|url=https://www.sciencedirect.com/science/article/pii/B9780128112571000024|location=|publisher=Elsevier|pages=35–46|doi=10.1016/B978-0-12-811257-1.00002-4|isbn= 978-0128112571|s2cid=89706800|accessdate=24 September 2020}}</span>
▲<span id="rampersad" class="citation" >{{cite book|last1=Rampersad|first1=S.|last2=Tennant|first2=P.|author-link=|date=2018|title=Viruses: Molecular Biology, Host Interactions and Applications to Biotechnology|url=https://www.sciencedirect.com/science/article/pii/B9780128112571000036|location=|publisher=Elsevier|pages=55–82|doi=10.1016/B978-0-12-811257-1.00003-6|isbn= 978-0128112571|s2cid=90170103|accessdate=24 September 2020}}</span>
{{Refend}}
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