Realm (virology)

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In virology, realm is the highest taxonomic rank established for viruses by the International Committee on Taxonomy of Viruses (ICTV), which oversees virus taxonomy. Six virus realms are recognized and united by specific highly conserved traits:

Contents

The rank of realm corresponds to the rank of domain used for cellular life, but differs in that viruses in a realm do not necessarily share a common ancestor based on common descent nor do the realms share a common ancestor. Instead, realms group viruses together based on specific traits that are highly conserved over time, which may have been obtained on a single occasion or multiple occasions. As such, each realm represents at least one instance of viruses coming into existence. While historically it was difficult to determine deep evolutionary relations between viruses, in the 21st century methods such as metagenomics and cryogenic electron microscopy have enabled such research to occur, which led to the establishment of Riboviria in 2018, three realms in 2019, and two in 2020.

Naming

The names of realms consist of a descriptive first part and the suffix -viria, which is the suffix used for virus realms. [1] The first part of Duplodnaviria means "double DNA", referring to dsDNA viruses, [2] the first part of Monodnaviria means "single DNA", referring to ssDNA viruses, [3] the first part of Riboviria is taken from ribonucleic acid (RNA), [4] and the first part of Varidnaviria means "various DNA". [5] For viroids, the suffix is designated as -viroidia, and for satellites, the suffix is -satellitia, [1] but as of 2019 neither viroid nor satellite realms have been designated. [6]

Realms

Duplodnaviria

Illustrated sample of Duplodnaviria virions Duplodnaviria virion morphology.jpg
Illustrated sample of Duplodnaviria virions

Duplodnaviria contains double-stranded DNA (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 . [2]

The relation between caudoviruses and herpesviruses is not certain, as they may either share a common ancestor or herpesviruses may be a divergent clade from within Caudovirales. A common trait among duplodnaviruses is that they cause latent infections without replication while still being able to replicate in the future. [7] [8] Tailed bacteriophages are ubiquitous worldwide, [9] important in marine ecology, [10] and the subject of much research. [11] Herpesviruses are known to cause a variety of epithelial diseases, including herpes simplex, chickenpox and shingles, and Kaposi's sarcoma. [12] [13] [14]

Monodnaviria

Monodnaviria contains single-stranded DNA (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. [3]

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. [3] Eukaryotic monodnaviruses are associated with many diseases, and they include papillomaviruses and polyomaviruses, which cause many cancers, [15] [16] and geminiviruses, which infect many economically important crops. [17]

Riboviria

Riboviria contains all RNA viruses that encode an RNA-dependent RNA polymerase (RdRp), assigned to the kingdom Orthornavirae , and all reverse transcribing viruses, i.e. all viruses that encode a reverse transcriptase (RT), assigned to the kingdom Pararnavirae . These enzymes are vital in the viral life cycle, as RdRp transcribes viral mRNA and replicates the genome, and RT likewise replicates the genome. [4] Riboviria mostly contains eukaryotic viruses, and most eukaryotic viruses, including most human, animal, and plant viruses, belong to the realm. [18]

Most widely known viral diseases are caused by viruses in Riboviria, which includes influenza viruses, HIV, coronaviruses, ebolaviruses, and the rabies virus, [6] as well as the first virus to be discovered, Tobacco mosaic virus . [19] Reverse transcribing viruses are a major source of horizontal gene transfer by means of becoming endogenized in their host's genome, and a significant portion of the human genome consists of this viral DNA. [20]

Varidnaviria

A ribbon diagram of the MCP of Pseudoalteromonas virus PM2, with the two jelly roll folds colored in red and blue 2w0c monomer.png
A ribbon diagram of the MCP of Pseudoalteromonas virus PM2 , with the two jelly roll folds colored in red and blue

Varidnaviria contains DNA viruses that encode MCPs that have a jelly roll fold folded structure in which the jelly roll (JR) fold is perpendicular to the surface of the viral capsid. Many members also share a variety of other characteristics, including a minor capsid protein that has a single JR fold, an ATPase that packages the genome during capsid assembly, and a common DNA polymerase. Two kingdoms are recognized: Helvetiavirae , whose members have MCPs with a single vertical JR fold, and Bamfordvirae , whose members have MCPs with two vertical JR folds. [5]

Marine viruses in Varidnaviria are ubiquitous worldwide and, like tailed bacteriophages, play an important role in marine ecology. [21] Most identified eukaryotic DNA viruses belong to the realm. [22] Notable disease-causing viruses in Varidnaviria include adenoviruses, poxviruses, and the African swine fever virus. [6] Poxviruses have been highly prominent in the history of modern medicine, especially Variola virus, which caused smallpox. [23] Many varidnaviruses are able to become endogenized, and a peculiar example of this are virophages, which confer protection for their hosts against giant viruses during infection. [22]

Adnaviria

Realm Adnaviria unifies archaeal filamentous viruses with linear A-form double-stranded DNA genomes and characteristic major capsid proteins unrelated to those encoded by other known viruses. [24] The realm currently includes viruses from three families, Lipothrixviridae , Rudiviridae , and Tristromaviridae , all infecting hyperthermophilic archaea. The nucleoprotein helix of adnaviruses is composed of asymmetric units containing two MCP molecules, a homodimer in the case of rudivirids and a heterodimer of paralogous MCPs in the case of lipothrixvirids and tristromavirids. [25] [26] The MCPs of ligamenviral particles have a unique α-helical fold first found in the MCP of rudivirid Sulfolobus islandicus rod-shaped virus 2 (SIRV2). [27] All members of the Adnaviria share a characteristic feature in that the interaction between the MCP dimer and the linear dsDNA genome maintains the DNA in the A form. Consequently, the entire genome adopts the A form in virions. Like many structurally related viruses in the two other realms of dsDNA viruses (Duplodnaviria and Varidnaviria), there is no detectable sequence similarity among the capsid proteins of viruses from different tokiviricete families, suggesting a vast undescribed diversity of viruses in this part of the virosphere.

Ribozyviria

Ribozyviria is characterised by the presence of genomic and antigenomic ribozymes of the Deltavirus type. Additional common features include a rod-like structure and a RNA-binding "delta antigen" encoded in the genome. [28]

Origins

In general, virus realms have no genetic relation to each other based on common descent, in contrast to the three domains of cellular life—Archaea, Bacteria, and Eukarya—which share a common ancestor. Likewise, viruses within each realm are not necessarily descended from a common ancestor since realms group viruses together based on highly conserved traits, not common ancestry, which is used as the basis for the taxonomy of cellular life. As such, each virus realm is considered to represent at least one instance of viruses coming into existence. [29] By realm:

While the realms generally have no genetic relation to each other, there are some exceptions:

Subrealm

In virology, the second highest taxonomy rank established by the ICTV is subrealm, which is the rank below realm. Subrealms of viruses use the suffix -vira, viroid subrealms use the suffix -viroida, and satellites use the suffix -satellitida. The rank below subrealm is kingdom. As of 2019, no taxa are described at the rank of subrealm. [1] [6]

History

Prior to the 21st century, it was believed that deep evolutionary relations between viruses could not be discovered due to their high mutation rates and small number of genes making discovering these relations more difficult. Because of this, the highest taxonomic rank for viruses from 1991 to 2017 was order. In the 21st century, however, various methods have been developed that have enabled these deeper evolutionary relationships to be studied, including metagenomics, which has identified many previously unidentified viruses, and comparison of highly conserved traits, leading to the desire to establish higher-level taxonomy for viruses. [29]

In two votes in 2018 and 2019, the ICTV agreed to adopt a 15-rank classification system for viruses, ranging from realm to species. [29] Riboviria was established in 2018 based on phylogenetic analysis of the RNA-dependent polymerases being monophyletic, [4] [37] Duplodnaviria was established in 2019 based on increasing evidence that tailed bacteriophages and herpesviruses shared many traits, [2] [38] Monodnaviria was established in 2019 after the relation and origin of CRESS-DNA viruses was resolved, [3] [39] and Varidnaviria was established 2019 based on the shared characteristics of member viruses. [5] [40]

See also

Related Research Articles

<span class="mw-page-title-main">DNA virus</span> Virus that has DNA as its genetic material

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 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. Reverse transcribing viruses, which have a DNA genome that is replicated through an RNA intermediate by a reverse transcriptase, are classified into the kingdom Pararnavirae in the realm Riboviria.

<span class="mw-page-title-main">RNA virus</span> Subclass of viruses

An RNA virus is a virus—other than a retrovirus—that has ribonucleic acid (RNA) as its genetic material. The nucleic acid is usually single-stranded RNA (ssRNA) but it may be double-stranded (dsRNA). Notable human diseases caused by RNA viruses include the common cold, influenza, SARS, MERS, Covid-19, Dengue Virus, hepatitis C, hepatitis E, West Nile fever, Ebola virus disease, rabies, polio, mumps, and measles.

Virus classification is the process of naming viruses and placing them into a taxonomic system similar to the classification systems used for cellular organisms.

<span class="mw-page-title-main">Baltimore classification</span> Virus classification system made by David Baltimore

Baltimore classification is a system used to classify viruses based on their manner of messenger RNA (mRNA) synthesis. By organizing viruses based on their manner of mRNA production, it is possible to study viruses that behave similarly as a distinct group. Seven Baltimore groups are described that take into consideration whether the viral genome is made of deoxyribonucleic acid (DNA) or ribonucleic acid (RNA), whether the genome is single- or double-stranded, and whether the sense of a single-stranded RNA genome is positive or negative.

<i>Lipothrixviridae</i> Family of viruses

Lipothrixviridae is a family of viruses in the order Ligamenvirales. Thermophilic archaea in the phylum Thermoproteota serve as natural hosts. There are 11 species in this family, assigned to 4 genera. The genus

Tristromaviridae is a family of viruses. Archaea of the genera Thermoproteus and Pyrobaculum serve as natural hosts. Tristromaviridae is the sole family in the order Primavirales. There are two genera and three species in the family.

<span class="mw-page-title-main">Positive-strand RNA virus</span> Class of viruses in the Baltimore classification

Positive-strand RNA viruses are a group of related viruses that have positive-sense, single-stranded genomes made of ribonucleic acid. The positive-sense genome can act as messenger RNA (mRNA) and can be directly translated into viral proteins by the host cell's ribosomes. Positive-strand RNA viruses encode an RNA-dependent RNA polymerase (RdRp) which is used during replication of the genome to synthesize a negative-sense antigenome that is then used as a template to create a new positive-sense viral genome.

<i>Riboviria</i> Realm of viruses

Riboviria is a realm of viruses that includes all viruses that use a homologous RNA-dependent polymerase for replication. It includes RNA viruses that encode an RNA-dependent RNA polymerase, as well as reverse-transcribing viruses that encode an RNA-dependent DNA polymerase. RNA-dependent RNA polymerase (RdRp), also called RNA replicase, produces RNA from RNA. RNA-dependent DNA polymerase (RdDp), also called reverse transcriptase (RT), produces DNA from RNA. These enzymes are essential for replicating the viral genome and transcribing viral genes into messenger RNA (mRNA) for translation of viral proteins.

<i>Duplodnaviria</i> Realm of viruses

Duplodnaviria is a realm of viruses that includes all double-stranded DNA viruses that encode the HK97 fold major capsid protein. The HK97 fold major capsid protein is the primary component of the viral capsid, which stores the viral deoxyribonucleic acid (DNA). Viruses in the realm also share a number of other characteristics, such as an icosahedral capsid, an opening in the viral capsid called a portal, a protease enzyme that empties the inside of the capsid prior to DNA packaging, and a terminase enzyme that packages viral DNA into the capsid.

<i>Monodnaviria</i> Realm of viruses

Monodnaviria is a realm of viruses that includes all single-stranded DNA viruses that encode an endonuclease of the HUH superfamily that initiates rolling circle replication of the circular viral genome. Viruses descended from such viruses are also included in the realm, including certain linear single-stranded DNA (ssDNA) viruses and circular double-stranded DNA (dsDNA) viruses. These atypical members typically replicate through means other than rolling circle replication.

<i>Varidnaviria</i> Realm of viruses

Varidnaviria is a realm of viruses that includes all DNA viruses that encode major capsid proteins that contain a vertical jelly roll fold. The major capsid proteins (MCP) form into pseudohexameric subunits of the viral capsid, which stores the viral deoxyribonucleic acid (DNA), and are perpendicular, or vertical, to the surface of the capsid. Apart from this, viruses in the realm also share many other characteristics, such as minor capsid proteins (mCP) with the vertical jelly roll fold, an ATPase that packages viral DNA into the capsid, and a DNA polymerase that replicates the viral genome.

<i>Bamfordvirae</i> Kingdom of viruses

Bamfordvirae is a kingdom of viruses. This kingdom is recognized for its use of double jelly roll major capsid proteins. It was formerly known as the PRD1-adenovirus lineage. The kingdom is named after Dennis H. Bamford who first promoted the evolutionary unity of all viruses encoding double jelly-roll major capsid proteins.

<i>Orthornavirae</i> Kingdom of viruses

Orthornavirae is a kingdom of viruses that have genomes made of ribonucleic acid (RNA), those genomes encoding an RNA-dependent RNA polymerase (RdRp). The RdRp is used to transcribe the viral RNA genome into messenger RNA (mRNA) and to replicate the genome. Viruses in this kingdom also share a number of characteristics involving evolution, including high rates of genetic mutations, recombinations, and reassortments.

Duplornaviricota is a phylum of RNA viruses, which contains all double-stranded RNA viruses, except for those in phylum Pisuviricota. Characteristic of the group is a viral capsid composed of 60 homo- or heterodimers of capsid protein on a pseudo-T=2 lattice. Duplornaviruses infect both prokaryotes and eukaryotes. The name of the group derives from Italian duplo which means double, rna for the type of virus, and -viricota which is the suffix for a virus phylum.

Tolivirales is an order of RNA viruses which infect insects and plants. Member viruses have a positive-sense single-stranded RNA genome. The virions are non-enveloped, spherical, and have an icosahedral capsid. The name of the group is a syllabic abbreviation of "tombusvirus-like" with the suffix -virales indicating a virus order.

<i>Lenarviricota</i> Phylum of viruses

Lenarviricota is a phylum of RNA viruses that includes all positive-strand RNA viruses that infect prokaryotes. Some members also infect eukaryotes. Most of these viruses do not have capsids, except for the genus Ourmiavirus. The name of the group is a syllabic abbreviation of the names of founding member families "Leviviridae and Narnaviridae" with the suffix -viricota, denoting a virus phylum.

<span class="mw-page-title-main">Archaeal virus</span>

An archaeal virus is a virus that infects and replicates in archaea, a domain of unicellular, prokaryotic organisms. Archaeal viruses, like their hosts, are found worldwide, including in extreme environments inhospitable to most life such as acidic hot springs, highly saline bodies of water, and at the bottom of the ocean. They have been also found in the human body. The first known archaeal virus was described in 1974 and since then, a large diversity of archaeal viruses have been discovered, many possessing unique characteristics not found in other viruses. Little is known about their biological processes, such as how they replicate, but they are believed to have many independent origins, some of which likely predate the last archaeal common ancestor (LACA).

<span class="mw-page-title-main">Portogloboviridae</span> Family of viruses

Portogloboviridae is a family of DNA viruses that infect archaea. It is a proposed family of the realm Varidnaviria. Viruses in the family are related to Halopanivirales. The capsid proteins of these viruses and their characteristics are of evolutionary importance for the origin of the other Varidnaviria viruses since they seem to retain primordial characters.

<i>Ribozyviria</i> Realm of viruses

Ribozyviria is a realm of satellite nucleic acids. Established in ICTV TaxoProp 2020.012D, the realm is named after the presence of genomic and antigenomic ribozymes of the Deltavirus type. Additional common features include a rod-like structure, a RNA-binding "delta antigen" encoded in the genome, and animal hosts. Furthermore, the size range of the genomes of these viruses is between around 1547–1735nt, they encode a hammerhead ribozyme or a hepatitis delta virus ribozyme, and their coding capacity only involves one conserved protein. Most lineages of this realm are poorly understood, the notable exception being members of the genus Deltavirus, the causal agents of Hepatitis D in humans.

<i>Adnaviria</i> Realm of viruses

Adnaviria is a realm of viruses that includes archaeal viruses that have a filamentous virion and a linear, double-stranded DNA genome. The genome exists in A-form (A-DNA) and encodes a dimeric major capsid protein (MCP) that contains the SIRV2 fold, a type of alpha-helix bundle containing four helices. The virion consists of the genome encased in capsid proteins to form a helical nucleoprotein complex. For some viruses, this helix is surrounded by a lipid membrane called an envelope. Some contain an additional protein layer between the nucleoprotein helix and the envelope. Complete virions are long and thin and may be flexible or a stiff like a rod.

References

  1. 1 2 3 "ICTV Code The International Code of Virus Classification and Nomenclature". International Committee on Taxonomy of Viruses (ICTV). October 2018. Retrieved 18 March 2020.
  2. 1 2 3 4 Koonin EV, Dolja VV, Krupovic M, Varsani A, Wolf YI, Yutin N, Zerbini M, Kuhn JH (18 October 2019). "Create a megataxonomic framework, filling all principal/primary taxonomic ranks, for dsDNA viruses encoding HK97-type major capsid proteins" (docx). International Committee on Taxonomy of Viruses. Retrieved 13 August 2020.
  3. 1 2 3 4 5 6 Koonin EV, Dolja VV, Krupovic M, Varsani A, Wolf YI, Yutin N, Zerbini M, Kuhn JH (18 October 2019). "Create a megataxonomic framework, filling all principal taxonomic ranks, for ssDNA viruses" (docx). International Committee on Taxonomy of Viruses. Retrieved 13 August 2020.
  4. 1 2 3 4 Koonin EV, Dolja VV, Krupovic M, Varsani A, Wolf YI, Yutin N, Zerbini M, Kuhn JH (18 October 2019). "Create a megataxonomic framework, filling all principal taxonomic ranks, for realm Riboviria" (docx). International Committee on Taxonomy of Viruses (ICTV). Retrieved 13 August 2020.
  5. 1 2 3 4 Koonin EV, Dolja VV, Krupovic M, Varsani A, Wolf YI, Yutin N, Zerbini M, Kuhn JH (18 October 2019). "Create a megataxonomic framework, filling all principal taxonomic ranks, for DNA viruses encoding vertical jelly roll-type major capsid proteins" (docx). International Committee on Taxonomy of Viruses. Retrieved 13 August 2020.
  6. 1 2 3 4 "Virus Taxonomy: 2019 Release". International Committee on Taxonomy of Viruses. International Committee on Taxonomy of Viruses. Retrieved 25 April 2020.
  7. ↑ Weidner-Glunde M, Kruminis-Kaszkiel E, Savanagoudar M (February 2020). "Herpesviral Latency—Common Themes". Pathogens. 9 (2): 125. doi: 10.3390/pathogens9020125 . PMC   7167855 . PMID   32075270.
  8. ↑ "Virus latency". ViralZone. Swiss Institute of Bioinformatics. Retrieved 27 August 2020.
  9. ↑ Andrade-Martínez JS, Moreno-Gallego JL, Reyes A (August 2019). "Defining a Core Genome for the Herpesvirales and Exploring their Evolutionary Relationship with the Caudovirales". Sci Rep. 9 (1): 11342. Bibcode:2019NatSR...911342A. doi:10.1038/s41598-019-47742-z. PMC   6683198 . PMID   31383901.
  10. ↑ Wilhelm SW, Suttle CA (October 1999). "Viruses and Nutrient Cycles in the Sea: Viruses play critical roles in the structure and function of aquatic food webs". BioScience. 49 (10): 781–788. doi: 10.2307/1313569 . JSTOR   1313569.
  11. ↑ Keen EC (January 2015). "A century of phage research: Bacteriophages and the shaping of modern biology". BioEssays. 37 (1): 6–9. doi:10.1002/bies.201400152. PMC   4418462 . PMID   25521633.
  12. ↑ Kukhanova MK, Korovina AN, Kochetkov SN (December 2014). "Human herpes simplex virus: life cycle and development of inhibitors". Biochemistry (Mosc). 79 (13): 1635–1652. doi:10.1134/S0006297914130124. PMID   25749169. S2CID   7414402.
  13. ↑ Gershon AA, Breuer J, Cohen JI, Cohrs RJ, Gershon MD, Gilden D, Grose C, Hambleton S, Kennedy PG, Oxman MN, Seward JF, Yamanishi K (2 July 2015). "Varicella zoster virus infection". Nat Rev Dis Primers. 1: 15016. doi:10.1038/nrdp.2015.16. PMC   5381807 . PMID   27188665.
  14. ↑ O'Leary JJ, Kennedy MM, McGee JO (February 1997). "Kaposi's sarcoma associated herpes virus (KSHV/HHV 8): epidemiology, molecular biology and tissue distribution". Mol Pathol. 50 (1): 4–8. doi:10.1136/mp.50.1.4. PMC   379571 . PMID   9208806.
  15. ↑ "Papillomaviridae". ViralZone. Swiss Institute of Bioinformatics. Retrieved 27 August 2020.
  16. ↑ "Polyomaviridae". ViralZone. Swiss Institute of Bioinformatics. Retrieved 27 August 2020.
  17. ↑ Malathi VG, Renuka Devi P (March 2019). "ssDNA Viruses: Key Players in Global Virome". Virusdisease. 30 (1): 3–12. doi:10.1007/s13337-019-00519-4. PMC   6517461 . PMID   31143827.
  18. 1 2 Wolf YI, Kazlauskas D, Iranzo J, Lucia-Sanz A, Kuhn JH, Krupovic M, Dolja VV, Kooning EV (27 November 2018). "Origins and Evolution of the Global RNA Virome". mBio. 9 (6): e02329-18. doi:10.1128/mBio.02329-18. PMC   6282212 . PMID   30482837.
  19. ↑ Harrison BD, Wilson TM (29 March 1999). "Milestones in the Research on Tobacco Mosaic Virus". Philos Trans R Soc Lond B Biol Sci. 354 (1383): 521–529. doi:10.1098/rstb.1999.0403. PMC   1692547 . PMID   10212931.
  20. ↑ Aiewsakun P, Katzourakis A (May 2015). "Endogenous Viruses: Connecting Recent and Ancient Viral Evolution". Virology. 479–480: 26–37. doi: 10.1016/j.virol.2015.02.011 . PMID   25771486.
  21. ↑ Kauffman KM, Hussain FA, Yang J, Arevalo P, Brown JM, Chang WK, VanInsberghe D, Elsherbini J, Sharma RS, Cutler MB, Kelly L, Polz MF (1 February 2018). "A Major Lineage of Non-Tailed dsDNA Viruses as Unrecognized Killers of Marine Bacteria". Nature. 554 (7690): 118–122. Bibcode:2018Natur.554..118K. doi:10.1038/nature25474. PMID   29364876. S2CID   4462007.
  22. 1 2 3 Krupovic M, Koonin EV (February 2015). "Polintons: a hotbed of eukaryotic virus, transposon and plasmid evolution". Nat Rev Microbiol. 13 (2): 105–115. doi:10.1038/nrmicro3389. PMC   5898198 . PMID   25534808.
  23. ↑ Meyer H, Ehmann R, Smith GL (February 2020). "Smallpox in the Post-Eradication Era". Viruses. 12 (2): 138. doi: 10.3390/v12020138 . PMC   7077202 . PMID   31991671.
  24. ↑ Krupovic, M; Kuhn, JH; Wang, F; Baquero, DP; Dolja, VV; Egelman, EH; Prangishvili, D; Koonin, EV (12 July 2021). "Adnaviria: a new realm for archaeal filamentous viruses with linear A-form double-stranded DNA genomes". Journal of Virology. 95 (15): e0067321. doi:10.1128/JVI.00673-21. PMC   8274609 . PMID   34011550.
  25. ↑ Wang, F; Baquero, DP; Beltran, LC; Su, Z; Osinski, T; Zheng, W; Prangishvili, D; Krupovic, M; Egelman, EH (2020). "Structures of filamentous viruses infecting hyperthermophilic archaea explain DNA stabilization in extreme environments". Proceedings of the National Academy of Sciences of the United States of America. 117 (33): 19643–19652. doi: 10.1073/pnas.2011125117 . PMC   7443925 . PMID   32759221.
  26. ↑ Wang, F; Baquero, DP; Su, Z; Osinski, T; Prangishvili, D; Egelman, EH; Krupovic, M (2020). "Structure of a filamentous virus uncovers familial ties within the archaeal virosphere". Virus Evolution. 6 (1): veaa023. doi:10.1093/ve/veaa023. PMC   7189273 . PMID   32368353.
  27. ↑ DiMaio, F; Yu, X; Rensen, E; Krupovic, M; Prangishvili, D; Egelman, EH (2015). "Virology. A virus that infects a hyperthermophile encapsidates A-form DNA". Science. 348 (6237): 914–7. doi:10.1126/science.aaa4181. PMC   5512286 . PMID   25999507.
  28. ↑ Hepojoki J, Hetzel U, Paraskevopoulou S, Drosten C, Harrach B, Zerbini M, Koonin EV, Krupovic M, Dolja V, Kuhn JH (6 December 2020). "Create one new realm (Ribozyviria) including one new family (Kolmioviridae) including genus Deltavirus and seven new genera for a total of 15 species" (docx). International Committee on Taxonomy of Viruses (ICTV). Retrieved 27 May 2021.
  29. 1 2 3 International Committee on Taxonomy of Viruses Executive Committee (May 2020). "The New Scope of Virus Taxonomy: Partitioning the Virosphere Into 15 Hierarchical Ranks". Nat Microbiol. 5 (5): 668–674. doi:10.1038/s41564-020-0709-x. PMC   7186216 . PMID   32341570.
  30. 1 2 3 4 Krupovic, M; Dolja, VV; Koonin, EV (14 July 2020). "The LUCA and its complex virome" (PDF). Nat Rev Microbiol. 18 (11): 661–670. doi:10.1038/s41579-020-0408-x. PMID   32665595. S2CID   220516514 . Retrieved 16 August 2020.
  31. 1 2 3 Krupovic M, Koonin EV (21 March 2017). "Multiple origins of viral capsid proteins from cellular ancestors". Proc Natl Acad Sci U S A. 114 (12): E2401–E2410. doi: 10.1073/pnas.1621061114 . PMC   5373398 . PMID   28265094.
  32. ↑ Kazlauskas D, Varsani A, Koonin EV, Krupovic M (31 July 2019). "Multiple Origins of Prokaryotic and Eukaryotic Single-Stranded DNA Viruses From Bacterial and Archaeal Plasmids". Nat Commun. 10 (1): 3425. Bibcode:2019NatCo..10.3425K. doi:10.1038/s41467-019-11433-0. PMC   6668415 . PMID   31366885.
  33. ↑ Zayed, Ahmed A.; et al. (April 8, 2022). "Cryptic and abundant marine viruses at the evolutionary origins of Earth's RNA virome". Science. 376 (6589): 156–162. Bibcode:2022Sci...376..156Z. doi:10.1126/science.abm5847. PMID   35389782. S2CID   248025736.
  34. ↑ Lee, Benjamin D.; Koonin, Eugene V. (2022-01-12). "Viroids and Viroid-like Circular RNAs: Do They Descend from Primordial Replicators?". Life. 12 (1): 103. doi: 10.3390/life12010103 . ISSN   2075-1729. PMC   8781251 . PMID   35054497.
  35. ↑ Krupovic M, Makarova KS, Koonin EV (1 February 2022). "Cellular homologs of the double jelly-roll major capsid proteins clarify the origins of an ancient virus kingdom". Proceedings of the National Academy of Sciences. 119 (5). doi: 10.1073/pnas.2120620119 . PMC   8812541 . PMID   35078938.
  36. ↑ Krupvoic M, Koonin EV (18 June 2014). "Evolution of eukaryotic single-stranded DNA viruses of the Bidnaviridae family from genes of four other groups of widely different viruses". Sci Rep. 4: 5347. Bibcode:2014NatSR...4E5347K. doi:10.1038/srep05347. PMC   4061559 . PMID   24939392.
  37. ↑ "ICTV Taxonomy history: Riboviria". International Committee on Taxonomy of Viruses. International Committee on Taxonomy of Viruses. February 2019. Retrieved 13 August 2020.
  38. ↑ "ICTV Taxonomy history: Duplodnaviria". International Committee on Taxonomy of Viruses. International Committee on Taxonomy of Viruses. March 2020. Retrieved 13 August 2020.
  39. ↑ "ICTV Taxonomy history: Monodnaviria". International Committee on Taxonomy of Viruses. International Committee on Taxonomy of Viruses. March 2020. Retrieved 13 August 2020.
  40. ↑ "ICTV Taxonomy history: Varidnaviria". International Committee on Taxonomy of Viruses. International Committee on Taxonomy of Viruses. March 2020. Retrieved 13 August 2020.

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