Fimoviridae


Fimoviridae

Chapter contents

Posted August 2018

Fimoviridae: The family

Member taxa

Supporting information

Citation

A summary of this ICTV Report chapter has been published as an ICTV Virus Taxonomy Profile article in the Journal of General Virology, and should be cited when referencing this online chapter as follows:

Elbeaino, T., Digiaro, M., Mielke-Ehret, N., Muehlbach, H., Martelli, G.P., and ICTV Report Consortium, 2018, ICTV Virus Taxonomy Profile: FimoviridaeJournal of General Virology, 99, 1478-1479

Summary

Members of the family Fimoviridae are plant viruses with segmented, linear, single-stranded, negative-sense RNA genomes that are distantly related to orthotospoviruses (family Tospoviridae) and orthobunyaviruses (family Peribunyaviridae). The family Fimoviridae, order Bunyavirales, includes one genus (Emaravirus) with nine species. Fimoviruses are transmitted to plants by eriophyid mite vectors and induce similar characteristic cytopathologies in their host plants, including the presence of double membrane bounded bodies (DMBs) in the cytoplasm of the virus-infected cells.

Table 1.Fimoviridae. Characteristics of the family Fimoviridae.

Characteristic

Description

Typical member

European mountain ash ringspot-associated virus, Hamburg (RNA1: AY563040; RNA2: AY563041; RNA3: DQ831831; RNA4: DQ831828 ), species European mountain ash ringspot-associated emaravirus, genus Emaravirus, family Fimoviridae, order Bunyavirales

Virion

Approximately spherical and enveloped with diameter 80–100 nm

Genome

Four to eight segments of negative-sense ssRNA (12.3–18.5 kb in total)

Replication

No information

Translation

From capped mRNAs (produced by "cap snatching" from host mRNAs) which are complementary to the vRNAs

Host range

Cercis, fig, kiwi, maize, pigeonpea, raspberry, rose, Sorbus, wheat

Taxonomy

Single genus including nine species

Virion 

Morphology

Fimoviruses have enveloped, approximately spherical virions, with a diameter of 80–100 nm (Figure 1.Fimoviridae), containing at least four negative-sense ssRNA segments (Elbeaino et al., 2009a).

Figure 1.Fimoviridae. Immunosorbent electron micrograph of virions of European mountain ash ringspot-associated virus. The bar represents 100 nm (Courtesy Inga Ludenberg, University of Hamburg, Germany).

Physicochemical and physical properties

None reported.

Nucleic acid

The viral genome comprises four (European mountain ash ringspot-associated virus) to eight segments of negative-sense ssRNA (High Plains wheat mosaic virus,) comprising 12.3 to 18.5 kb in total. Genomic RNAs are not capped or polyadenylated and all contain complementary sequences (18–20 nt, depending on the segment) at their 5′- and 3′-termini. Five conserved motifs (A–E) in the amino acid sequence of the RNA-dependent RNA polymerase (RdRP) protein are similar to those in bunyavirales L segments (Elbeaino et al., 2009b).

Proteins

Each RNA segment of the genome encodes a single protein translated from the complementary strand as follows: RNA1 - RNA-dependent RNA polymerase (RdRP, p1, 264–269 kDa; 226.9 kDa in Actinidia chlorotic ringspot-associated virus); RNA2 - a glycoprotein precursor (GP, p2, 73–76.6 kDa) that is predicted to be cleaved into products of 21.5–25.0 and 51–52 kDa; RNA3 - the nucleocapsid protein (NP, p3, 32–35.6 kDa); RNA4 - a putative movement protein (MP, p4, ca. 40.5–43.6 kDa)

Lipids

Uncharacterised.

Carbohydrates

Uncharacterised. 

Genome organization and replication

Fimoviruses differ from other related viruses (orthotospoviruses and orthobunyaviruses) by having a larger number of genomic RNA segments. RNA1 to RNA4 each encode a single protein (Figure 2.Fimoviridae). The function of proteins encoded by the other RNAs (RNA5 to RNA8) remain unknown (Tatineni et al., 2014). Like other negative-sense ssRNA multipartite viruses, some fimoviruses are known to use “cap snatching” to initiate transcription and facilitate translation of their mRNAs, as it was proven in the cases of RRV and FMV (Walia and Falk 2012, Laney et al., 2011).

Figure 2.Fimoviridae. Coding strategy and genome segments of European mountain ash ringspot-associated virus (isolate Hamburg). Arrows represent the virion-complementary sense RNA, from which the proteins shown are translated. RdRP: RNA-dependent RNA polymerase; Gn and Gc: putative glycoproteins cleaved (dotted lines) from the precursor molecule; NP: nucleocapsid protein; MP: putative movement protein. 

Antigenicity

No information available.

Biology 

Depending on the host plant, symptoms of fimovirus infection vary from leaf mottling, blotching, vein clearing, chlorotic ringspots, yellowing, sterility of flowers to a general mosaic. Fimoviruses are transmitted by grafting and there is evidence that many have eriophyid mite vectors (Epstein and Hill 1995, Kumar et al., 2003). 

Derivation of names

Fimo: from fig mosaic

Phylogenetic relationships

Phylogenetic trees constructed with fimovirus RdRP (Figure 3.Fimoviridae), GP or NC protein sequences display similar topologies with two (or three) main clades (Zheng et al., 2017, Elbeaino et al., 2015). The first group includes High Plains wheat mosaic virus and raspberry leaf blotch virus, while the second comprises all the others, which in turn could be subdivided into two subgroups: i) subgroup a, comprising fig mosaic virus, rose rosette virus, pigeonpea sterility mosaic virus 2 and pigeonpea sterility mosaic virus 1, and ii) subgroup b, including European mountain ash ringspot-associated virus, redbud yellow ringspot-associated virus and Actinidia chlorotic ringspot-associated virus.

Figure 3.Fimoviridae. Phylogenetic tree constructed with amino acid sequences encoded by RNA1 (RdRP), of members of the family Fimoviridae and the orthologous L segment-encoded proteins of members of the families Peribunyaviridae and Topsoviridae. An alignment was obtained using MUSCLE within MEGA6 (Tamura et al., 2013) and a maximum likelihood tree produced with 1000 bootstrap replicates. The percentage of replicate trees in which the associated taxa clustered together in the bootstrap is shown next to the branches (when >70%). * Blackberry leaf mottle-associated virus is an unclassified virus in the family Fimoviridae. An isolate of Grapevine fanleaf virus, genus Nepovirus, family Secoviridae, was used to root the tree. This phylogenetic tree and corresponding sequence alignment are available to download from the Resources page.

Similarity with other taxa

Viruses of the family Fimoviridae (order Bunyavirales) are related to viruses in the families Tospoviridae and Peribunyaviridae in that they share (i) a multipartite negative-sense single-stranded RNA genome of four to eight segments; (ii) high sequence identity with orthologous proteins of members of the order Bunyavirales at equivalent genome positions in the first three RNAs (corresponding to L, M, and S RNA segments), i.e. RNA-dependent RNA polymerase (RdRP, RNA1), putative glycoprotein precursor (GP, RNA2) and putative nucleocapsid protein (NP, RNA3); (iii) five conserved motifs (A-E) in the amino acid sequence of their RdRP similar to those in L segment-encoded proteins of members of the order Bunyavirales; (iv) enveloped virions; (vi) stretches of nucleotides at both 5′- and 3′-termini of all RNA segments that are almost perfectly complementary to each other. These sequences are conserved in all genomic RNAs of fimoviruses, and are similar, but not identical, to those of other members of the order Bunyavirales.

Related, unclassified viruses

Virus name

Accession number

Virus abbreviation

blackberry leaf mottle-associated virus

RNA1: KY056657;
RNA2: KY056658;
RNA3: KY056659;
RNA4: KY056660;
RNA5: KY056661

BLMaV

Virus names and virus abbreviations are not official ICTV designations.

 


Genus: Emaravirus


Since only one genus (Emaravirus) is currently recognized in the family Firmoviridae, the family description above corresponds to the genus description. For clarity, the additional information that can be found on the genus page is also presented below.

Species demarcation criteria

Species in the genus are demarcated based upon the amino acid sequence of relevant gene products of RNA1 (RdRP), RNA2 (GP) and RNA3 (NP) differing by more than 25%.

Derivation of names 

Emara: from European mountain ash ringspot-associated virus.

Member species

SpeciesVirus name(s)Exemplar isolateExemplar accession numberExemplar RefSeq numberAvailable sequenceOther isolatesOther isolate accession numbersVirus abbreviationIsolate abbreviation
Actinidia chlorotic ringspot-associated emaravirusActinidia chlorotic ringspot-associated virusHN-6RNA1: KT861481; RNA2: KT861482; RNA3: KT861483; RNA4: KT861484; RNA5: KT861485Complete genomeAcCRaV
European mountain ash ringspot-associated emaravirusEuropean mountain ash ringspot-associated virusHamburgRNA1: AY563040; RNA2: AY563041; RNA3: DQ831831; RNA4: DQ831828RNA1: NC_013105; RNA2: NC_013106; RNA3: NC_013108; RNA4: NC_013107Complete genomeEMARaV
Fig mosaic emaravirusfig mosaic virusGr10 RNA1: AM941711; RNA2: FM864225; RNA3: FM991954; RNA4: FM992851; RNA5: HE803826; RNA6: HE803827RNA1: NC_029562; RNA2: NC_029565; RNA3: NC_029563; RNA4: NC_029564; RNA5: NC_029566; RNA6: NC_029568Complete genomeFMV
High Plains wheat mosaic emaravirusHigh Plains wheat mosaic virusNebraskaRNA1: KJ939623; RNA2: KJ939624; RNA3: KJ939626; RNA4: KJ939627; RNA5: KJ939628; RNA6: KJ939629; RNA7: KJ939630; RNA8: KJ939631RNA1: NC_029570; RNA2: NC_029549; RNA3: NC_029550; RNA4: NC_029551; RNA5: NC_029552; RNA6: NC_029553; RNA7: NC_029554; RNA8: NC_029555Complete genomeHPWMoV
Pigeonpea sterility mosaic emaravirus 1pigeonpea sterility mosaic virus 1IndiaRNA1: HF568801; RNA2: HF568802; RNA3: HF568803; RNA4: HF568804; RNA5: HF945448RNA1: NC_029575; RNA2: NC_029556; RNA3: NC_029574; RNA4: NC_029557; RNA5: NC_029569Complete genomePPSMV
Pigeonpea sterility mosaic emaravirus 2pigeonpea sterility mosaic virus 2ICP8863RNA1: HF912243; RNA2: HF912244; RNA3: HF912245; RNA4: HF912246; RNA5: HG939489; RNA6: HG939490RNA1: NC_030660; RNA2: NC_030662; RNA3: NC_030661; RNA4: NC_030663; RNA5: NC_030658; RNA6: NC_030659Complete genomePPSMV-2
Raspberry leaf blotch emaravirusraspberry leaf blotch virusTayside RNA1: FR823299; RNA2: FR823300; RNA3: FR823301; RNA4: FR823302; RNA5: FR823303; RNA6: KP970121; RNA7: KP970122; RNA8: KP970123RNA1: NC_029567; RNA2: NC_029558; RNA3: NC_029559; RNA4: NC_029560; RNA5: NC_029561; RNA6: NC_029571; RNA7: NC_029572; RNA8: NC_029573Complete genomeRLBV
Redbud yellow ringspot-associated emaravirusredbud yellow ringspot-associated virusArkansas RNA1: JF795479; RNA2: JF795480; RNA3: JF795481; RNA4: JF795482; RNA5: KU904300Partial genomeRYRaV
Rose rosette emaravirusrose rosette virusArkansas RNA1: HQ871942; RNA2: HQ871943; RNA3: HQ871944; RNA4: HQ871945RNA1: NC_015298; RNA2: NC_015299; RNA3: NC_015300; RNA4: NC_015301Complete genomeRRV

Virus names, the choice of exemplar isolates, and virus abbreviations, are not official ICTV designations.