A short insert in the leader sequence of RNA 3L, a long variant of alfalfa mosaic virus RNA3, introduces two unidentified reading frames

Authors

Kithsiri Jayasena, Department of Agriculture and Food, Western AustraliaFollow
John Randles, University of Adelaide

Document Type

Article

Publication Date

12-2004

Journal Title

Virus Genes

ISSN

Print: 0920-8569 Electronic: 1572-994X

Keywords

Alfalfa mosaic virus-N20, RNA 3L, 5' leader URF1, URF2, 21aa peptides

Disciplines

Agronomy and Crop Sciences | Biosecurity

Abstract

N20-RNA 3L, a large form of RNA 3 associated with Alfalfa mosaic virus (AMV) strain N20 comprises 2281nt and has approximately 97% overall sequence similarity to the longest previously described RNA 3 of AMV strain YSMV (YSMV-RNA 3; 2188nt). Compared with YSMV-RNA 3, N20-RNA 3L contains an additional 97nt in the 5' leader upstream of the open reading frames for movement protein (MP) and coat protein (CP). Two overlapping unidentified reading frames (URF1 and URF2) result from this modification, each of which code for putative translation products of 21 amino acids. The URF1 putative peptide has a hydrophilic N-terminus and a hydrophobic C-terminus, indicating a possible association with both host cell membrane and cytosol whereas the putative URF2 product is predominantly hydrophobic. A further structural modification found in N20-RNA 3L is a new tandem repeat of 243nts which overlaps with the MP open reading frame.

Recommended Citation

Jayasena, K, and Randles, J. (2004), A short insert in the leader sequence of RNA 3L, a long variant of alfalfa mosaic virus RNA3, introduces two unidentified reading frames. Virus Genes, 29, 311-316.
https://library.dpird.wa.gov.au/bs_research/84