The complete nucleotide sequence of subterranean clover mottle virus

Dwyer, G. I., Njeru, R., Williamson, S., Fosu-Nyarko, J., Hopkins, R., Jones, R. A. C., Waterhouse, Peter M., & Jones, M. G. K. (2003) The complete nucleotide sequence of subterranean clover mottle virus. Archives of Virology, 148(11), pp. 2237-2247.

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Abstract

The complete nucleotide sequence of Subterranean clover mottle virus (SCMoV) genomic RNA has been determined. The SCMoV genome is 4,258 nucleotides in length. It shares most nucleotide and amino acid sequence identity with the genome of Lucerne transient streak virus (LTSV). SCMoV RNA encodes four overlapping open reading frames and has a genome organisation similar to that of Cocksfoot mottle virus (CfMV). ORF1 and ORF4 are predicted to encode single proteins. ORF2 is predicted to encode two proteins that are derived from a -1 translational frameshift between two overlapping reading frames (ORF2a and ORF2b). A search of amino acid databases did not find a significant match for ORF1 and the function of this protein remains unclear. ORF2a contains a motif typical of chymotrypsin-like serine proteases and ORF2b has motifs characteristically present in positive-stranded RNA-dependent RNA polymerases. ORF4 is likely to be expressed from a subgenomic RNA and encodes the viral coat protein. The ORF2a/ORF2b overlapping gene expression strategy used by SCMoV and CfMV is similar to that of the poleroviruses and differ from that of other published sobemoviruses. These results suggest that the sobemoviruses could now be divided into two distinct subgroups based on those that express the RNA-dependent RNA polymerase from a single, in-frame polyprotein, and those that express it via a -1 translational frameshifting mechanism.

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ID Code: 65959
Item Type: Journal Article
Refereed: Yes
Additional URLs:
Keywords: Amino Acid Sequence, Base Sequence, Capsid Proteins, Molecular Sequence Data, Open Reading Frames, Plant Viruses, RNA, Viral, Trifolium, Cocksfoot mottle virus, Dactylis glomerata, Lucerne transient streak virus, Medicago sativa, Subterranean clover mottle virus, Trifolium subterraneum
DOI: 10.1007/s00705-003-0144-3
ISSN: 0304-8608
Subjects: Australian and New Zealand Standard Research Classification > BIOLOGICAL SCIENCES (060000) > GENETICS (060400)
Australian and New Zealand Standard Research Classification > BIOLOGICAL SCIENCES (060000) > PLANT BIOLOGY (060700)
Divisions: Current > Schools > School of Earth, Environmental & Biological Sciences
Current > QUT Faculties and Divisions > Science & Engineering Faculty
Copyright Owner: Copyright 2003 Springer Wien
Deposited On: 09 Jan 2014 06:26
Last Modified: 09 Jan 2014 06:26

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