Nidovirales

Nidovirales is an order of viruses with animal and human hosts (MERS-CoV and SARS-CoV). It includes the families Coronaviridae,[2][3] Arteriviridae,[4] Roniviridae and Mesoniviridae.

Nidovirales
Virus classification
(unranked): Virus
Realm: Riboviria
Phylum: incertae sedis
Order: Nidovirales
Suborders and Families[1]

The order Nidovirales is named for the Latin nidus, meaning nest, as all viruses in this order produce a 3' co-terminal nested set of subgenomic mRNA's during infection.[5]

Virology

This group consists of viruses which have positive-sense, single-stranded RNA genomes. As positive-sense genomes, the viruses can use some host cell proteins during replication and gene expression which occurs in the cytoplasm of the host cell.

This group of viruses expresses structural proteins separately from the nonstructural ones. The structural proteins are encoded at the 3’ region of the genome and are expressed from a set of subgenomic mRNAs. These viruses encode one main proteinase and between one and three accessory proteinases which are mainly involved in expressing the replicase gene. These proteinases are also responsible for activating or inactivating specific proteins at the correct time in the virus life cycle, ensuring replication occurs at the right time.

A large number of proteins have been identified on the genomes of Nidovirales, but their function has not yet been determined. Other enzymes that may be present in the genome include papain-like proteases, ADP-ribose/poly(ADP-ribose)-binding and/or ADP-ribose 1''-phosphate phosphatase activities and cyclic nucleotide phosphodiesterase.

Most, but not all, nidovirus subgenomic RNAs contain a 5′ leader sequence derived from the 5′ end of the genomic RNA.

The frameshift that generates ORF1b frameshift occurs at a UUUAAAC heptanucleotide 'slippery' sequence located upstream of the ORF1a stop codon and a putative RNA pseudoknot structure.

The virus which has the largest known nonsegmented RNA genome of 31.5kb, the mouse hepatitis virus (MHV), is of the order nidovirales.

Taxonomy

This order of viruses can be distinguished from other RNA viruses by a constellation of seven conserved domains—5'-TM2-3CLpro-TM3-RdRp-Zm-HEL1-NendoU-3'—with the first three being encoded in ORF1a and the remaining four in ORF1b. TM2 and TM3 and transmembrane domains; RdRp is the RNA polymerase; Zm is a Zn-cluster binding domain fused with a helicase (HEL1); 3CLpro is a 3C-like protease; and NendoU is an uridylate-specific endonuclease. The 3CLpro has a catalytic His-Cys dyad, and is also as the SARS coronavirus main proteinase.

The Nidovirales can be divided into two clades depending on the size of the genome: those with large genomes (26.3–31.7 kilobases) which included the Coronaviridae and Roniviridae (the large nidoviruses) and those with small genomes (the small nidoviruses)—a clade that includes the distantly related Arteriviridae (12.7–15.7 kb). The large nidoviruses encode both a 2'-O-methyltransferase and a 3'–5' exoribonuclease (ExoN)—the latter being very unusual for an RNA virus. They also encode a superfamily 1 helicase, uridylate-specific endonuclease (an enzyme unique to nidoviruses) and several proteases.

Notes

Nidovirales belongs to Group IV of the Baltimore classification system.

A virus belonging to this group—Cavally virus—has been isolated from mosquitoes.[6] It appears to be unrelated to the other member of this order and probably is the first member of a new family.

Another virus has been isolated from mosquitoes—Nam Dinh virus—that appears to belong a new family in this order.[7]

Cavally virus and Nam Dinh virus have been identified as two serotypes of the same species, Alphamesonivirus 1, and placed in a newly discovered family—Mesoniviridae.[8]

Gill-associated virus and yellow head virus, both isolated from prawns, are members of this order.[9][10] These latter two viruses have been classified into the family Roniviridae genus Okavirus.

Another virus—white bream virus—isolated from fish may also belong to this order.[11]

See also

References
  1. "Virus Taxonomy: 2018b Release" (html). International Committee on Taxonomy of Viruses (ICTV). March 2019. Retrieved 7 November 2019.
  2. Luis Enjuanes, Isabel Sola, Sonia Zúñiga and Fernando Almazán (2008). "Coronavirus Replication and Interaction with Host". In Thomas C. Mettenleiter and Francisco Sobrino (eds.). Animal Viruses: Molecular Biology. Caister Academic Press. ISBN 978-1-904455-22-6.CS1 maint: uses authors parameter (link) CS1 maint: uses editors parameter (link)
  3. Volker Thiel, ed. (2007). Coronaviruses: Molecular and Cellular Biology. Caister Academic Press. ISBN 978-1-904455-16-5.
  4. Udeni B. R. Balasuriya and Eric J. Snijder (2008). "Arteriviruses". In Thomas C. Mettenleiter and Francisco Sobrino (ed.). Animal Viruses: Molecular Biology. Caister Academic Press. ISBN 978-1-904455-22-6.CS1 maint: uses authors parameter (link)
  5. Antoine A.F. de Vries, Marian C. Horzinek, Peter J. M. Rottier, Raoul J. de Groot (1997). "The Genome Organization of the Nidovirales: Similarities and Differences between Arteri-, Toro-, and Coronaviruses". Seminars in Virology. 8 (1): 33–47. CiteSeerX 10.1.1.462.1825. doi:10.1006/smvy.1997.0104.CS1 maint: uses authors parameter (link)
  6. Zirkel, F.; et al. (2011). "An Insect Nidovirus Emerging from a Primary Tropical Rainforest". mBio. 2 (3): e00077–11. doi:10.1128/mBio.00077-11. PMC 3111606. PMID 21673192.
  7. Nga, Phan Thi; et al. (2011). "Discovery of the First Insect Nidovirus, a Missing Evolutionary Link in the Emergence of the Largest RNA Virus Genomes". PLoS Pathogens. 7 (9): e1002215. doi:10.1371/journal.ppat.1002215. PMC 3169540. PMID 21931546.
  8. Zirkel, F; et al. (2013). "Identification and characterization of genetically divergent members of the newly established family Mesoniviridae". Journal of Virology. 87 (11): 6346–58. doi:10.1128/JVI.00416-13. PMC 3648093. PMID 23536661.
  9. Cowley, JA; Dimmock, CM; Spann, KM; Walker, PJ (2000). "Gill-associated virus of Penaeus monodon prawns: an invertebrate virus with ORF1a and ORF1b genes related to arteri- and coronaviruses". The Journal of General Virology. 81 (Pt 6): 1473–84. doi:10.1099/0022-1317-81-6-1473. PMID 10811931.
  10. Sittidilokratna, N; Dangtip, S; Cowley, JA; Walker, PJ (2008). "RNA transcription analysis and completion of the genome sequence of yellow head nidovirus". Virus Research. 136 (1–2): 157–65. doi:10.1016/j.virusres.2008.05.008. PMID 18582978.
  11. Schutze, H.; et al. (2006). "Characterization of White Bream Virus Reveals a Novel Genetic Cluster of Nidoviruses". Journal of Virology. 80 (23): 11598–11609. doi:10.1128/JVI.01758-06. PMC 1642614. PMID 16987966.
  • Nidovirales—ICTVdB—The Universal Virus Database, version 4.
  • Nidovirales at the US National Library of Medicine Medical Subject Headings (MeSH)
  • NIH/MeSH
  • "The Nidoviruses" ISBN 0306466341
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