International Committee on Taxonomy of Viruses

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International Committee on Taxonomy of Viruses
International Committee on Taxonomy of Viruses logo.png
Official logo
AbbreviationICTV
Formation1966;55 years ago (1966)
PurposeRegulation of taxonomy of viruses
Fields Taxonomy
Virology
President (2020–2023)
Murilo Zerbini
Vice-President (2020–2023)
Stuart Siddell
Parent organization
International Union of Microbiological Societies, Virology Division
Affiliations Microbiology Society
Wellcome
Website talk.ictvonline.org OOjs UI icon edit-ltr-progressive.svg

The International Committee on Taxonomy of Viruses (ICTV) authorizes and organizes the taxonomic classification of and the nomenclatures for viruses. [1] [2] [3] The ICTV has developed a universal taxonomic scheme for viruses, and thus has the means to appropriately describe, name, and classify every virus that affects living organisms. The members of the International Committee on Taxonomy of Viruses are considered expert virologists. [4] The ICTV was formed from and is governed by the Virology Division of the International Union of Microbiological Societies. [5] Detailed work, such as delimiting the boundaries of species within a family, typically is performed by study groups of experts in the families. [2]

Contents

History

The International Committee on Nomenclature of Viruses (ICNV) was established in 1966, at the International Congress for Microbiology in Moscow, to standardize the naming of viruses. [6] The ICVN published its first report in 1971. [6] For viruses infecting vertebrates, the first report included 19 genera, 2 families, and a further 24 unclassified groups.[ citation needed ]

The ICNV was renamed the International Committee on Taxonomy of Viruses in 1974. [6]

Organisational structure

The organisation is divided into an executive committee, which includes fixed-term elected roles, and six subcommittees, each of which is further divided into numerous 'study groups', which each consist of one chair and a variable number of members dedicated to the taxonomy of a specific taxon, such as an order or family. This structure may be visualised as follows: [7]

Executive committee
  • Business Secretary
  • Proposals Secretary
  • Data Secretary
Subcommittees

Objectives

The objectives of the International Committee on Taxonomy of Viruses are:

  1. To develop an internationally agreed taxonomy for viruses.
  2. To establish internationally agreed names for virus taxa.
  3. To communicate the decisions reached concerning the classification and nomenclature of viruses to virologists by holding meetings and publishing reports.
  4. To maintain an official index of agreed names of virus taxa.
  5. To study the virus effects in modern society and their behaviour.

Principles of nomenclature

The ICTV's essential principles of virus nomenclature are:

The ICTV's universal virus classification system uses a slightly modified version of the standard biological classification system. It only recognises the taxa order, family, subfamily, genus, and species. When it is uncertain how to classify a species into a genus but its classification in a family is clear, it will be classified as an unassigned species of that family. Many taxa remain unranked. There are also, as of 2005, GenBank sequences assigned to 3,142 "species" which are not accounted for in the ICTV report (due to the way GenBank works, however, the actual number of proper species is probably significantly smaller). [2] The number of unidentified virus sequences is only expected to increase as the rate of virus sequencing increases dramatically. [2]

The ICTV has been strikingly successful in achieving stability, since their inception in 1962. Every genus and family recognized in the 1980s continued to be in use as of 2005, for example. [2]

Naming and changing taxa

Proposals for new names, name changes, and the establishment and taxonomic placement of taxa are handled by the Executive Committee of the ICTV in the form of proposals. All relevant ICTV subcommittees and study groups are consulted prior to a decision being taken.

The name of a taxon has no official status until it has been approved by ICTV, and names will only be accepted if they are linked to approved hierarchical taxa. If no suitable name is proposed for a taxon, the taxon may be approved and the name be left undecided until the adoption of an acceptable international name, when one is proposed to and accepted by ICTV. Names must not convey a meaning for the taxon which would seem to either exclude viruses which are rightfully members of that taxon, exclude members which might one day belong to that taxon, or include viruses which are members of different taxa.

Rules for taxa

Species

A species name shall consist of as few words as practicable but must not consist only of a host name and the word virus. A species name must provide an appropriately unambiguous identification of the species. Numbers, letters, or combinations thereof may be used as species epithets where such numbers and letters are already widely used. However, newly designated serial numbers, letters or combinations thereof are not acceptable alone as species epithets. If a number or letter series is in existence it may be continued.

Genera

A virus genus is a group of related species that share some significant properties and often only differ in host range and virulence. A genus name must be a single word ending in the suffix -virus. Approval of a new genus must be accompanied by the approval of a type species.

Subfamilies

A subfamily is a group of genera sharing certain common characters. The taxon shall be used only when it is needed to solve a complex hierarchical problem. A subfamily name must be a single word ending in the suffix -virinae.

Families

A family is a group of genera, whether or not these are organized into subfamilies, sharing certain common characters with each other. A family name must be a single word ending in the suffix -viridae.

Orders

An order is a group of families sharing certain common characters. An order name must be a single word ending in the suffix -virales.

Rules for sub-viral agents

Rules concerned with the classification of viruses shall also apply to the classification of viroids. The formal endings for taxa of viroids are the word viroid for species, the suffix -viroid for genera, the suffix -viroinae for sub-families, should this taxon be needed, and -viroidae for families.

Retrotransposons are considered to be viruses in classification and nomenclature. Satellites and prions are not classified as viruses but are assigned an arbitrary classification as seems useful to workers in the particular fields.

Rules for orthography

  1. In formal taxonomic usage the accepted names of virus orders, families, subfamilies, and genera are printed in italics and the first letters of the names are capitalized. [8]
  2. Species names are printed in italics and have the first letter of the first word capitalized. Other words are not capitalized unless they are proper nouns, or parts of proper nouns.
  3. In formal usage, the name of the taxon shall precede the term for the taxonomic unit.

Classification of viruses discovered by metagenomics

Acknowledging the importance of viral metagenomics, the ICTV recognizes that genomes assembled from metagenomic data represent actual viruses and encourages their official classification following the same procedures as those used for viruses isolated and characterized using classical virology approaches. [9] [10]

ICTV reports

The ICTV has published reports of virus taxonomy about twice a decade since 1971 (listed below - "Reports"). The ninth ICTV report was published in December 2011; [11] the content is now freely available through the ICTV website. [12] Beginning in 2017 the tenth ICTV report will be published online on the ICTV website [13] and will be free to access with individual chapters updated on a rolling basis. The 2018 taxonomy is available online., [14] including a downloadable Excel spreadsheet of all recognized species.

ICTVdb database

ICTVdb is a species and isolate database that has been intended to serve as a companion to the ICTV taxonomy database. The development of ICTVdB has been supported by the ICTV since 1991 and was initially intended to aid taxonomic research. The database classifies viruses based primarily on their chemical characteristics, genomic type, nucleic acid replication, diseases, vectors, and geographical distribution, among other characteristics.

The database was developed at the Australian National University with support of the US National Science Foundation, and sponsored by the American Type Culture Collection. It uses the Description Language for Taxonomy (DELTA) system, a world standard for taxonomic data exchange, developed at Australia's Commonwealth Scientific and Industrial Research Organisation (CSIRO). DELTA is able to store a wide diversity of data and translate it into a language suitable for traditional reports and web publication. For example, ICTVdB does not itself contain genomic sequence information but can convert DELTA data into NEXUS format. [15] It can also handle large data inputs and is suited to compiling long lists of virus properties, text comments, and images.

ICTVdB has grown in concept and capability to become a major reference resource and research tool; in 1999 it was receiving over 30,000 combined online hits per day from its main site at the Australian National University, and two mirror sites based in the UK and United States. [16]

In 2011, the ICTV decided to suspend the ICTVdb project and web site. This decision was made after it became apparent that the taxonomy provided on the site was many years out of date, and that some of the information on the site was inaccurate due to problems with how the database was being queried and processed to support the natural language output of the ICTVdb web site. The ICTV has begun discussions on how best to fix these problems, but decided that the time frame for updates and error correction were sufficiently long that it was best to take the site down rather than perpetuate the release of inaccurate information.[ citation needed ] As of August 2013, the database remains on hold. [3] According to some views, "ICTV should also promote the use of a public database to replace the ICTV database as a store of the primary metadata of individual viruses, and should publish abstracts of the ICTV Reports in that database, so that they are ‘Open Access’." [3]

See also

Reports

Related Research Articles

In biological classification, the order is

  1. a taxonomic rank used in the classification of organisms and recognized by the nomenclature codes. The well-known ranks in descending order are: life, domain, kingdom, phylum, class, order, family, genus, and species, with order fitting in between class and family. An immediately higher rank, superorder, is sometimes added directly above order, with suborder directly beneath order.
  2. a taxonomic unit in the rank of order. In that case the plural is orders.

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

<i>Mononegavirales</i> Order of viruses

Mononegavirales is an order of negative-strand RNA viruses which have nonsegmented genomes. Some common members of the order are Ebola virus, human respiratory syncytial virus, measles virus, mumps virus, Nipah virus, and rabies virus. All of these viruses cause significant disease in humans. Many other important pathogens of nonhuman animals and plants are also in the group. The order includes eleven virus families: Artoviridae, Bornaviridae, Filoviridae, Lispiviridae, Mymonaviridae, Nyamiviridae, Paramyxoviridae, Pneumoviridae, Rhabdoviridae, Sunviridae, and Xinmoviridae.

<i>Marburgvirus</i> Genus of virus

The genus Marburgvirus is the taxonomic home of Marburg marburgvirus, whose members are the two known marburgviruses, Marburg virus (MARV) and Ravn virus (RAVV). Both viruses cause Marburg virus disease in humans and nonhuman primates, a form of viral hemorrhagic fever. Both are Select agents, World Health Organization Risk Group 4 Pathogens, National Institutes of Health/National Institute of Allergy and Infectious Diseases Category A Priority Pathogens, Centers for Disease Control and Prevention Category A Bioterrorism Agents, and are listed as Biological Agents for Export Control by the Australia Group.

<i>Ebolavirus</i> Genus of viruses

The genus Ebolavirus is a virological taxon included in the family Filoviridae, order Mononegavirales. The members of this genus are called ebolaviruses, and encode their genome in the form of single-stranded negative-sense RNA. The six known virus species are named for the region where each was originally identified: Bundibugyo ebolavirus, Reston ebolavirus, Sudan ebolavirus, Taï Forest ebolavirus, Zaire ebolavirus, and Bombali ebolavirus. The last is the most recent species to be named and was isolated from Angolan free-tailed bats in Sierra Leone.

<i>Influenza B virus</i> species of virus

Influenza B virus is the only species in the genus Betainfluenzavirus in the virus family Orthomyxoviridae.

Bovine alphaherpesvirus 2 (BoHV2) is a virus of the family Herpesviridae that causes two diseases in cattle, bovine mammillitis and pseudo-lumpy skin disease. BoHV2 is similar in structure to human herpes simplex virus.

Pepper huasteco yellow vein virus (PHV) is a plant pathogenic virus of the family Geminiviridae.

Pepper mild tigré virus (PepMTV) is a plant pathogenic virus of the family Geminiviridae. It was demoted from species status in 2002.

Pepper golden mosaic virus is a plant pathogenic virus of the family Geminiviridae. It affects Capsicum annuum and all tomatoes. It was first discovered in Texas in 1987, and was called Texas Pepper Virus, and a two years later in Mexico after it destroyed up to 100% of plants in afflicted fields in the autumn of 1989, mainly in north-west Mexico.

Anelloviridae is a family of viruses. They are classified as vertebrate viruses and have a non-enveloped capsid, which is round with isometric, icosahedral symmetry and has a triangulation number of 3.

<i>Benyvirus</i> Genus of viruses

Benyvirus is a genus of viruses, in the family Benyviridae. Plant serve as natural hosts. There are four species in this genus. Diseases associated with this genus include: BNYVV: rhizomania.

Taxonomic rank Level in a taxonomic hierarchy

In biological classification, taxonomic rank is the relative level of a group of organisms in a taxonomic hierarchy. Examples of taxonomic ranks are species, genus, family, order, class, phylum, kingdom, domain, etc.

<i>Carlavirus</i> Genus of viruses

Carlavirus, formerly known as the "Carnation latent virus group", is a genus of viruses in the order Tymovirales, in the family Betaflexiviridae. Plants serve as natural hosts. There are 53 species in this genus. Diseases associated with this genus include: mosaic and ringspot symptoms.

Aspiviridae Family of viruses

Aspiviridae, formerly Ophioviridae, is a family of segmented negative-strand RNA viruses which infect plants. Member viruses are characterized by an elongated and highly filamentous and flexible nucleocapsid with helical symmetry. It is a monotypic taxon containing only one genus, Ophiovirus. Aspiviridae is also the only family in the order Serpentovirales, which in turn is the only order in the class Milneviricetes.

The species Taï Forest ebolavirus is a virological taxon included in the genus Ebolavirus, family Filoviridae, order Mononegavirales. The species has a single virus member, Taï Forest virus (TAFV). The members of the species are called Taï Forest ebolaviruses.

The species Sudan ebolavirus is a virological taxon included in the genus Ebolavirus, family Filoviridae, order Mononegavirales. The species has a single virus member, Sudan virus (SUDV). The members of the species are called Sudan ebolaviruses.

<i>Betacoronavirus 1</i> Species of pathogenic Betacoronavirus

Betacoronavirus 1 is a species of coronavirus which infects humans and cattle. The infecting virus is an enveloped, positive-sense, single-stranded RNA virus and is a member of the genus Betacoronavirus and subgenus Embecovirus. It has, like other embecoviruses, an additional shorter spike-like surface protein called hemagglutinin esterase (HE).

Acara orthobunyavirus (ACAV) is a species in the genus Orthobunyavirus, belonging to the Capim serogroup. It is isolated from sentinel mice, Culex species, and the rodent Nectomys squamipes in Pará, Brazil and in Panama. The symptoms of the Acará virus is death. Sometimes reported to cause disease in humans.

<i>Saccharomyces cerevisiae virus L-A</i> Species of virus

Saccharomyces cerevisiae virus L-A, also called L-A helper virus, is a member of the Totiviridae family of viruses found primarily in Saccharomyces cerevisiae. Its discovery in the 1970s was the main starting point of research on yeast virology. It is a double-stranded RNA virus with no extracellular phase and so is inherited through vertical cytoplasmic transmission. Additionally, in many strains of the yeast, it is found along with another virus called the M virus, known to encode the killer toxin in many S. cerevisiae strains which confers the ability to kill neighboring sensitive cells that do not harbor the virus. It is indeed for this reason the virus is referred to as a helper virus, due to the M genome's dependence on it for its own survival and replication.

References

  1. King, Andrew M.Q.; Lefkowitz, E.; Adams, M.J.; Carstens, E.B. (2012). Virus Taxonomy Classification and Nomenclature of Viruses: Ninth Report of the International Committee on Taxonomy of Viruses. Elsevier. ISBN   978-0-12-384684-6. Archived from the original on 10 December 2017. Retrieved 13 April 2017.
  2. 1 2 3 4 5 Fauquet CM, Fargette D (2005). "International Committee on Taxonomy of Viruses and the 3,142 unassigned species". Virol. J. 2: 64. doi:10.1186/1743-422X-2-64. PMC   1208960 . PMID   16105179.
  3. 1 2 3 Gibbs AJ (2013). "Viral taxonomy needs a spring clean; its exploration era is over". Virol. J. 10: 254. doi:10.1186/1743-422X-10-254. PMC   3751428 . PMID   23938184.
  4. "Banking Diverse Data - The Origins of ICTVdB". 13 November 2005. Archived from the original on 13 November 2005. Retrieved 6 April 2018.
  5. "Archived copy". Archived from the original on 30 September 2007. Retrieved 22 June 2006.CS1 maint: archived copy as title (link)
  6. 1 2 3 Kuhn, Jens H. (2021). "Virus taxonomy". Encyclopedia of Virology. 1: 28–37. doi:10.1016/B978-0-12-809633-8.21231-4. ISBN   9780128145166. PMC   7157452 .
  7. "International Committee on Taxonomy of Viruses (ICTV)". talk.ictvonline.org. Retrieved 17 September 2020.
  8. Ali, Muhammad (2016). "Towards a coherent nomenclature of plant viruses". Virologica Sinica. 31 (3): 197–198. doi:10.1007/s12250-016-3741-5. PMC   8193424 . PMID   27052507. S2CID   10162214.
  9. Simmonds P, Adams MJ, Benkő M, Breitbart M, Brister JR, Carstens EB, Davison AJ, Delwart E, Gorbalenya AE, Harrach B, Hull R, King AMQ, Koonin EV, Krupovic M, Kuhn JH, Lefkowitz EJ, Nibert ML, Orton R, Roossinck MJ, Sabanadzovic S, Sullivan MB, Suttle CA, Tesh RB, van der Vlugt RA, Varsani A, Zerbini FM (2017). "Consensus statement: Virus taxonomy in the age of metagenomics" (PDF). Nature Reviews Microbiology. 15 (3): 161–168. doi: 10.1038/nrmicro.2016.177 . PMID   28134265. Archived (PDF) from the original on 23 July 2018. Retrieved 18 October 2019.
  10. Adams MJ, Lefkowitz EJ, King AM, Harrach B, Harrison RL, Knowles NJ, Kropinski AM, Krupovic M, Kuhn JH, Mushegian AR, Nibert ML, Sabanadzovic S, Sanfaçon H, Siddell SG, Simmonds P, Varsani A, Zerbini FM, Orton RJ, Smith DB, Gorbalenya AE, Davison AJ (2017). "50 years of the International Committee on Taxonomy of Viruses: progress and prospects" (PDF). Archives of Virology. 162 (5): 1441–1446. doi: 10.1007/s00705-016-3215-y . PMID   28078475. Archived (PDF) from the original on 23 July 2018. Retrieved 17 September 2019.
  11. King, Andrew M. Q.; et al., eds. (2012). Virus taxonomy : classification and nomenclature of viruses : ninth report of the International Committee on Taxonomy of Viruses. London: Academic Press. ISBN   978-0123846846. Archived from the original on 11 September 2014. Retrieved 9 December 2014.
  12. 1 2 "International Committee on Taxonomy of Viruses (ICTV)". talk.ictvonline.org. Archived from the original on 2 April 2019. Retrieved 18 October 2019.
  13. 1 2 "International Committee on Taxonomy of Viruses (ICTV)". talk.ictvonline.org. Archived from the original on 1 July 2019. Retrieved 18 October 2019.
  14. "International Committee on Taxonomy of Viruses (ICTV)". talk.ictvonline.org. Archived from the original on 4 March 2018. Retrieved 18 October 2019.
  15. Maddison DR, Swofford DL, Maddison WP (December 1997). "NEXUS: an extensible file format for systematic information". Syst. Biol. 46 (4): 590–621. doi:10.1093/sysbio/46.4.590. PMID   11975335. S2CID   30267491.
  16. "Banking Diverse Data - The Origins of ICTVdB". 13 November 2005. Archived from the original on 13 November 2005. Retrieved 18 October 2019.