Genus: Ephemerovirus


Genus: Ephemerovirus

Distinguishing features

Viruses assigned to the genus Ephemerovirus form a distinct monophyletic group based on well-supported maximum-likelihood trees inferred from complete L sequences. The ephemerovirus clade is part of a larger phylogenetic group of arthropod-borne rhabdoviruses with large and complex genomes that also includes hapaviruses, tibroviruses and curioviruses. All ephemeroviruses have multiple accessory genes between the G gene and L gene, including: i) a gene encoding a large non-structural glycoprotein (GNS); and ii) a gene encoding a class 1a viroporin (α1 or U1). Viruses in the genus cross-react strongly in complement-fixation (CF) and indirect immunofluorescence tests.

Virion

Bullet-shaped or cone-shaped bovine ephemeral fever virus (BEFV) virions (140–200 nm x 60–80 nm) have been observed in negatively-stained preparations of infected culture supernates and in ultrathin sections of infected cells. Virions display a prominent axial channel intruding from the base and a precisely coiled, helical nucleocapsid with 35 cross-striations at intervals of 4.8 nm (Murphy et al., 1972, Lecatsas et al., 1969, Holmes and Doherty 1970). 

Physicochemical and physical properties

BEFV virions have a buoyant density in CsCl of 1.19 g cm−3 and sedimentation coefficient of 625 S. BEFV is sensitive to acid and alkali; the virus is most stable at pH 7.0–8.0 (Tanaka et al., 1969, Heuschele 1970, Della-Porta and Brown 1979).

Nucleic acid

Ephemerovirus genomes consist of a single molecule of negative-sense, single-stranded RNA ranging from 14.5 kb to 16.1 kb (Walker et al., 2015, Walker et al., 1992, Blasdell et al., 2012, Blasdell et al., 2012).

Proteins

Ephemerovirus N, P, M, G and L share sequence homology and/or structural characteristics with the cognate proteins of other rhabdoviruses (Walker et al., 1991, Walker et al., 2011). Other ephemerovirus proteins encoded in the genome have not been identified definitively in virions. The GNS glycoproteins are non-structural and range from 534–609 amino acids (unprocessed range 62.0–71.0 kDa); they share significant amino acid sequence identity with G and appear to have arisen by gene duplication (Walker et al., 1992, Wang and Walker 1993). The α1 proteins (also designated U1) are class 1a viroporins (Joubert et al., 2014); they range from 88 to 108 amino acids (10.6–12.5 kDa) and feature an N-terminal domain containing large hydrophobic residues, a central transmembrane domain and a highly basic C-terminal domain. The α2 proteins (also designated U1x) range from 92 to 116 amino acids (10.7–14.1 kDa); the β proteins (also designated U2) range from 146 to 157 amino acids (16.5–18.5 kDa); the γ proteins range from 100 to 115 amino acids (11.7–13.8 kDa); and the kotonkan virus (KOTV) and Koolpinyah virus (KOOLV) δ proteins are each 109 amino acids (12.2 and 12.4 kDa, respectively). Yata virus (YATV) proteins encoded in the unique alternative ORFs U2 and U2x are, respectively, 123 amino acids (14.4 kDa) and 53 amino acids (6.1 kDa). Other than the α1 proteins, the sequences of small ephemerovirus accessory proteins reveal no remarkable structural characteristics and are only highly conserved between closely related viruses; their functions are not known (Walker et al., 2015).

Carbohydrates

The ephemerovirus virion envelope glycoprotein (G) and the large non-structural glycoprotein (GNS) are each glycosylated and contain multiple predicted sites for N-linked glycosylation (Walker et al., 2015, Walker et al., 1992, Wang and Walker 1993, Walker et al., 1991, Blasdell et al., 2012, Blasdell et al., 2012).

Genome organisation and replication

Ephemerovirus genomes include five genes (N, P, M, G and L) encoding the structural proteins and multiple additional long ORFs between the G gene and L gene (Walker et al., 2015) (Figure 1.Ephemerovirus). In all ephemeroviruses, an ORF encoding a non-structural glycoprotein (GNS) lies in an independent transcriptional unit immediately following the G gene. The GNS gene is then followed by an ORF (α1 or U1) encoding a class 1a viroporin. In most ephemeroviruses, the α1 ORF is followed by a second consecutive ORF (α2 or U1x) within the same transcriptional unit. Overlapping termination and initiation codons and an upstream ‘termination upstream ribosome-binding site’ (TURBS) indicate that α2 is likely to be expressed by a stop-start mechanism of translation. The α1/α2 gene is followed by up to three additional ORFs (β or U2; γ or U3; and δ or U4), each in an independent transcriptional unit. However, some ephemeroviruses (BEFV, BRMV, KIMV and YATV) lack the d gene and others (ARV and OBOV) lack both the g gene and d gene. YATV lacks the α2 (U1x) ORF but has an additional independent transcriptional unit containing two alternative ORFs between the α1 and b genes; the proteins encoded in these ORFs appear unrelated to other ephemerovirus proteins. In all ephemeroviruses, ORFs in independent transcriptional units are flanked by conserved transcription initiation (AACAG) and transcription termination/polyadenylation (TGAAAAAAA) sequences.

Figure 1.Ephemerovirus. Schematic representation of ephemerovirus genomes. N, P, M, G and L represent ORFs encoding the structural proteins. The GNS (red), α1 (yellow), α2 orange), β (blue), γ (green) and δ (purple) ORFs are highlighted. The GNS ORF encodes a non-structural class I transmembrane glycoprotein; the α1 ORF encodes a class 1a viroporin; other ORFs in the region between the G gene and L gene encode proteins of unknown function.

Antigenicity

Ephemeroviruses cross-react strongly in CF or indirect immunofluorescence tests; they may also show low level cross-reactions by indirect immunofluorescence with viruses of the genus Lyssavirus (Calisher et al., 1989). However, sequence comparisons with other rhabdoviruses indicate that, in evolutionary terms, the ephemeroviruses are closer to tibroviruses, hapaviruses, curioviruses and vesiculoviruses than to lyssaviruses (Walker et al., 2015). There is only one known BEFV serotype worldwide, with virus isolates from different regions (Australia, Asia, Africa) displaying significant cross-neutralisation (Walker and Klement 2015). There is a low level of cross-neutralisation between BEFV and Berrimah virus (BRMV), between Adelaide River virus (ARV) and Obodhiang virus (OBOV) (Blasdell et al., 2012, Gard et al., 1983) and KOOLV and KOTV (Blasdell et al., 2014); no significant cross-neutralisation between other ephemeroviruses has been reported. BEFV G contains four distinct neutralisation sites (Cybinski et al., 1990, Kongsuwan et al., 1998). BEFV G purified from virions or expressed from recombinant vaccinia virus protects cattle from experimental infection (Uren et al., 1994, Hertig et al., 1996). The GNS glycoprotein does not induce neutralising antibodies and is not protective (Hertig et al., 1996, Johal et al., 2008).

Biology

Ephemeroviruses have been isolated exclusively from cattle and haematophagous insects (mosquitoes and biting midges) (Walker and Klement 2015). Bovine ephemeral fever is an economically important disease of cattle and water buffalo in most tropical and sub-tropical regions of Africa, Australia, and Asia. BEFV infection causes a sudden onset of fever and other clinical signs including lameness, anorexia and ruminal stasis, followed by a sustained drop in milk production. Although the mortality rate is usually low (1–2%), it is highest in well-conditioned beef cattle and high-producing dairy cattle (Walker and Klement 2015, Walker 2005). KOTV has also been associated with an outbreak of ephemeral fever in Africa (Tomori et al., 1974, Kemp et al., 1973). Other members of the genus are not recognised as animal pathogens; however, most have been isolated from healthy sentinel cattle or are known to infect cattle.

Species demarcation criteria

Viruses assigned to different species within the genus Ephemerovirus have several of the following characteristics: A) minimum amino acid sequence divergence of 15% in L; B) minimum amino acid sequence divergence of 8% in N; C) can be distinguished in serological tests; and D) significant differences in genome organisation as evidenced by numbers and locations of ORFs. All existing members each meet criteria A, B and C. Most members also meet criterion D.

Member Species

SpeciesVirus name(s)Exemplar isolateExemplar accession numberExemplar RefSeq numberAvailable sequenceOther isolatesOther isolate accession numbersVirus Abbreviation(s)Isolate Abbreviation
Adelaide River ephemerovirusAdelaide River virus DPP61JN935380NC_028246Complete genomeARV
Berrimah ephemerovirusBerrimah virus DPP63HM461974NC_025358Complete genomeBRMV
Bovine fever ephemerovirusbovine ephemeral fever virus BB7721AF234533NC_002526Complete genomeBEFV
Kimberley ephemerovirusKimberley virusCS368JQ941664NC_025396Complete genomeKIMV
Koolpinyah ephemerovirusKoolpinyah virusDPP819KM085029NC_028239Complete genomeKOOLV
Kotonkan ephemeroviruskotonkan virus IbAr23380HM474855NC_017714Complete genomeKOTV
Obodhiang ephemerovirusObodhiang virus SudAr 1154-64HM856902NC_017685Complete genomeOBOV
Yata ephemerovirusYata virusDakAr B2181KM085030NC_028241Complete genomeYATV

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.

Derivation of names

Ephemerovirusfrom the name of the virus assigned to the type species (bovine ephemeral fever virus; BEFV; species Bovine fever ephemerovirus).

Related, Unclassified Viruses 

Virus name

Accession number

Virus abbreviation

Hayes Yard virus

not available

HYV

New Kent County virus

MF615270

NKCV

Puchong virus

not available

PUCV

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