Molecular characterisation of a novel cassava associated circular ssDNA virus

The application of sequence non-specific rolling circle amplification of circular single stranded (ss) DNA molecules to viral metagenomics has facilitated the discovery in various ecosystems of what is probably a diverse array of novel ssDNA viruses. Here we describe a putative novel ssDNA virus (at...

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Bibliographic Details
Published in:	Virus research Vol. 166; no. 1-2; pp. 130 - 135
Main Authors:	Dayaram, Anisha, Opong, Allen, Jäschke, Anja, Hadfield, James, Baschiera, Marianna, Dobson, Renwick C.J., Offei, Samuel K., Shepherd, Dionne N., Martin, Darren P., Varsani, Arvind
Format:	Journal Article
Language:	English
Published:	Netherlands Elsevier B.V 01-06-2012
Subjects:	Amino Acid Sequence amino acids Cassava Circovirus circular DNA clones Cluster Analysis coat proteins Culicidae DNA Viruses - genetics DNA Viruses - isolation & purification DNA, Single-Stranded - chemistry DNA, Single-Stranded - genetics DNA, Viral - chemistry DNA, Viral - genetics ecosystems fungi Geminiviridae Geminivirus genes host range introns leaves Manihot - virology Manihot esculenta Meles meles metagenomics Models, Molecular Molecular Sequence Data mycoviruses Open Reading Frames Phylogeny Plant Leaves - virology Protein Conformation Rolling circle amplification Sclerotinia sclerotiorum Sequence Analysis, DNA Sequence Homology, Amino Acid Sequence Homology, Nucleic Acid single-stranded DNA ssDNA virus Rolling circle amplification ssDNA virus Cassava
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Summary:	The application of sequence non-specific rolling circle amplification of circular single stranded (ss) DNA molecules to viral metagenomics has facilitated the discovery in various ecosystems of what is probably a diverse array of novel ssDNA viruses. Here we describe a putative novel ssDNA virus (at a genome level), cassava associated circular DNA virus (CasCV), isolated from cassava leaf samples infected with the fungi Collectotrichum and Plectosphaerella. CasCV has a circular ambisense genome and shares significant genome similarities with Sclerotinia sclerotiorum hypovirulence-associated DNA virus 1 (SsHADV-1), Mosquito VEM virus SDBVL and Meles meles faecal virus (MmFV). The CasCV genome (2220nt) has three large open reading frames. While it is probable that one of these encodes a capsid protein, the other two probably express a replication associated protein (Rep) following the removal of an intron such as that found in the Rep encoding genes of some geminiviruses. This Rep would contain four conserved rolling circle replication (RCR) related motifs that have previously been identified in geminivirus, circovirus and nanovirus Reps. Given both that the CasCV Rep and CP share 62.7% and 39.8% amino acid identity respectively with the Rep and CP of SsHADV-1, and that CasCV was discovered associated with cassava infecting fungi, we suggest that CasCV should be classified within the mycovirus taxonomic family. However, host range studies using infectious clones will be required to demonstrate the novel virus’ likely origin and actual host species.
Bibliography:	http://dx.doi.org/10.1016/j.virusres.2012.03.009 ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23
ISSN:	0168-1702 1872-7492
DOI:	10.1016/j.virusres.2012.03.009