Eupatorium vein clearing virus (EVCV) is a plant pararetrovirus found in Eupatorium ornamental plants species, a genus of herbaceous perennial plants belonging to Asteraceae family, which was proposed to be a putative Caulimovirus-like member (Zhang et al. 2008, unpublished) of the Caulimoviridae family (International Committee on the Taxonomy of Viruses -ICTV- Fauquet et al. 2005). This is a perspective clearly supported by phylogenetic analyses inferred based on the COAT(GAG) and pol protein domains (Llorens et al 2009).

EVCV virions are composed of a genomic circular double-stranded DNA (8463 bp long) encoding for six Open reading frames (ORFs) whose size and organization are similar to those of known caulimoviruses (Zhang et al. 2008, unpublished). The aminoacids sequences of the potentially predicted protein products show similarities to those encoded by the corresponding ORFs of known Caulimoviruses. ORF I encodes the putative movement protein (MOV), ORF II and ORF III are similar to the "aphid transmission factor" (ATF) and "virion associated protein" (VAP), respectively. ORF IV encodes the putative COAT protein and contains the "RNA-binding" motif characteristic of the Caulimoviridae COAT (Gag-like) domain (C-X-C-X2-C-X4-H-X4-C ) (Bouhida et al. 1993;Hull 1996; Llorens et al 2009). ORF V product is a polyprotein displaying the typical Pol domains -aspartic protease (PR), reverse transcriptase (RT) and RNase H (RH) – and ORF VI encodes a putative "Translational transactivator protein" (TAV) (Zhang et al. 2008, unpublished). A short intergenic region is present between ORFs V (Pol) and VI (TAV) as observed in the genome of other Caulimovirus-like species such as LLDAV. A second larger intergenic region is downstream to the ORF VI. In both cases the regions are rich in several stop codons.


(MOV=ORF I; ATF=ORF II; VAP=ORF III; COAT(Gag)=ORF IV; POL=ORF V; TAV=ORF VI; solid line=untranslated region)

Figure not to scale. If present, long terminal repeats (LTRs) have been highlighted in blue. Amino acid motifs noted with lines indicate the conserved residues in each protein domain, abbreviations below mean:

MA=matrix PR=protease DU or DUT=dUTPase TM=transmembrane TAV or IBMP=transactivator/viroplasmin or inclusion body matrix protein
CA=capsid RT=reverse transcriptase INT=Integrase CHR=chromodomain
NC=nucleocapsid RH=RNaseH SU=surface MOV=movement protein
PPT=polypurine tract PBS=primer binding site ATF=aphid transmission factor VAP=virion associated protein

Related literature

Genbank accession: 189009869
Clade: '
Cluster or genus: Caulimovirus
Branch or class: Class 1
Family: Caulimoviridae
System: LTR retroelements
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Eupatorium spp.
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Welcome to the Gypsy Database (GyDB) an open editable database about the evolutionary relationship of viruses, mobile genetic elements (MGEs) and the genomic repeats where we invite all authors to contribute with their knowledge to improve and expand the topics.
Cite this project:

Llorens, C., Futami, R., Covelli, L., Dominguez-Escriba, L., Viu, J.M., Tamarit, D., Aguilar-Rodriguez, J. Vicente-Ripolles, M., Fuster, G., Bernet, G.P., Maumus, F., Munoz-Pomer, A., Sempere, J.M., LaTorre, A., Moya, A. (2011) The Gypsy Database (GyDB) of Mobile Genetic Elements: Release 2.0 Nucleic Acids Research (NARESE) 39 (suppl 1): D70-D74 doi: 10.1093/nar/gkq1061

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