Secoviridae

Genus: Comovirus


Genus: Comovirus

Distinguishing features

The comovirus capsid is made of two types of polypeptides (large CP: 40-45 kDa and small CP: 21-27 kDa). The small CP suppresses RNA silencing and surface-exposed amino acids are required for this function.

The 5ʹ and 3ʹ UTRs of RNA-1 and RNA-2 are similar in sequence but not identical. RNA-2 is translated into two largely overlapping polyproteins that are processed into three domains. Production of the smaller polyprotein is caused by internal initiation at a downstream AUG, which is placed in a more favourable context than the upstream AUG (Figure 1.Comovirus). The 58K protein released from the N-terminus of the larger polyprotein (P2) is necessary for replication of RNA-2. The 48K protein released from the N-terminus of the smaller polyprotein (P2ʹ) is the MP, with a typical “LPL” motif. The CP domains are encoded at the C-terminus of both polyproteins. The MP and the CPs are required for cell-to-cell movement of the virus (Wellink and Van Kammen 1989). The MP is a structural component of tubular structures containing virus-like particles that traverse the cell wall. The C-terminal region of the MP also interacts with the large CP (Carvalho et al., 2003). RNA-1 is translated into a single polyprotein that is processed into five domains, through alternative processing pathways (Figure 1.Comovirus). The N-terminal 32K protein limits the processing of the RNA-1-encoded polyprotein in cis and assists the processing of the RNA-2-encoded polyprotein (Peters et al., 1992). This protein is often referred to as the protease co-factor or Co-Pro. The replication block on the RNA-1-encoded polyprotein includes the 58K protein with sequence motifs characteristic of an NTP-binding helicase, the VPg, the Pro and the Pol. The 32K Co-Pro and 58K NTB proteins are involved in inducing the cytopathic structure through proliferation of ER-derived membranes (Carette et al., 2002).

Figure 1.Comovirus. Genome organization and polyprotein processing of cowpea mosaic virus. The ORFs are boxed and the function of the proteins is indicated. MP: movement protein; CPL and CPS: large and small coat proteins; Co-Pro: proteinase co-factor; NTB: NTP-binding proteins; Pro: proteinase; Pol: RNA-dependent RNA polymerase. Proteolytic cleavage sites are indicated on the polyproteins with the vertical lines. All intermediate and final cleavage products have been detected in infected cells. The black circles at the 5′ end of the RNA represents the VPg, and A(n) at the 3′ end the poly-A tail.

Comoviruses have narrow host ranges, 11 of the 15 species being restricted to a few species of the family Leguminosae. Mosaic and mottle symptoms are characteristic, but usually not ringspots. Transmission in nature is exclusively by beetles, especially members of the family Chrysomelidae. Beetles retain their ability to transmit virus for days or weeks.

Virion

See discussion under family description.

Genome organization and replication

See discussion under family description.

Biology

See discussion under family description.

Species demarcation criteria

See discussion under family description.

Member Species

SpeciesVirus name(s)Exemplar isolateExemplar accession numberExemplar RefSeq numberAvailable sequenceOther isolatesOther isolate accession numbersVirus Abbreviation(s)
Andean potato mottle virusAndean potato mottle virusCL16239Partial genomeAPMoV-C
Bean pod mottle virusbean pod mottle virusKY G-7RNA-1: M62738; RNA-2: U70866RNA-1: NC_003495; RNA-2: NC_003496Complete genomeBPMV-KY G-7
Bean rugose mosaic virusbean rugose mosaic virusParanaRNA-1: KP404602; RNA-2: KP404603RNA-1: NC_028139; RNA-2: NC_028146Complete genomeBRMV-Parana
Broad bean stain virusbroad bean stain virus07013PCRNA-1: KJ746622; RNA-2: FJ028650Partial genomeBBSV-07013PC
Broad bean true mosaic virusbroad bean true mosaic virusEV-11 RNA-1: GU810903; RNA-2: GU810904RNA-1: NC_022004; RNA-2: NC_022006Complete genomeBBTMV-EV-11
Cowpea mosaic viruscowpea mosaic virusvan WezenbeekRNA-1: X00206; RNA-2: X00729RNA-1: NC_003549; RNA-2: NC_003550Complete genomeCPMV-van Wezenbeek
Cowpea severe mosaic viruscowpea severe mosaic virusChenRNA-1: M83830; RNA-2: M83309RNA-1: NC_003545; RNA-2: NC_003544Complete genomeCPSMV-Chen
Glycine mosaic virusGlycine mosaic virusNo entry in GenbankGMV
Pea green mottle viruspea green mottle virusNo entry in GenbankPGMV
Pea mild mosaic viruspea mild mosaic virusNo entry in GenbankPMiMV
Quail pea mosaic virusquail pea mosaic virusNo entry in GenbankQPMV
Radish mosaic virusradish mosaic virusJapanRNA-1: AB295643; RNA-2: AB295644RNA-1: NC_010709; RNA-2: NC_010710Complete genomeRaMV-Japan
Red clover mottle virusred clover mottle virusShanksRNA-1: X64886; RNA-2: M14913RNA-1: NC_003741; RNA-2: NC_003738Complete genomeRCMV-Shanks
Squash mosaic virussquash mosaic virusYRNA-1: AB054688; RNA-2: AB054689RNA-1: NC_003799; RNA-2: NC_003800Complete genomeSqMV-Y
Ullucus virus CUllucus virus CNo entry in GenbankUVC

Virus names, the choice of exemplar isolates, and virus abbreviations, are not official ICTV designations.
Download GenBank/EMBL query for sequences listed in the table here.

Related, Unclassified Viruses 

Virus name

Accession  number

Virus abbreviation

turnip ringspot virus

RNA-1: FJ516745; RNA-2: FJ516746

TuRSV

Turnip ringspot virus (TuRSV) is related to radish mosaic virus (RaMV). They infect similar hosts. The degree of aa sequence identity between the two viruses is close to the proposed species demarcation criteria (73% aa sequence identity in the combined CP region and 80% aa sequence identity in the Pro-Pol region) (Petrzik and Koloniuk 2010). It is not known whether re-assortment between the RNAs of TuRSV and RaMV is possible. Therefore, the taxonomic position of TuRSV as a distinct species in the genus Comovirus or as a distant strain of the species Radish mosaic virus remains unclear.

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