Please use this identifier to cite or link to this item: https://doi.org/10.1128/JVI.80.7.3395-3405.2006
Title: Analyses of subgenomic promoters of Hibiscus chlorotic ringspot virus and demonstration of 5′ untranslated region and 3′-terminal sequences functioning as subgenomic promoters
Authors: Li, W. 
Wong, S.-M. 
Issue Date: Apr-2006
Citation: Li, W., Wong, S.-M. (2006-04). Analyses of subgenomic promoters of Hibiscus chlorotic ringspot virus and demonstration of 5′ untranslated region and 3′-terminal sequences functioning as subgenomic promoters. Journal of Virology 80 (7) : 3395-3405. ScholarBank@NUS Repository. https://doi.org/10.1128/JVI.80.7.3395-3405.2006
Abstract: Hibiscus chlorotic ringspot virus (HCRSV), which belongs to the genus Carmovirus, generates two 3′-coterminal subgenomic RNAs (sgRNAs) of 1.4 kb and 1.7 kb. Transcription start sites of the two sgRNAs were identified at nucleotides (at) 2178 and 2438, respectively. The full promoter of sgRNA1, a 118-base sequence, is localized between positions +6 and -112 relative to its transcription start site (+1). Similarly, a 132-base sequence, from +6 to -126, defines the sgRNA2 promoter. Computer analysis revealed that both sgRNA promoters share a similar two-stem-loop (SL1 + SL2) structure, immediately upstream of the transcription start site. Mutational analysis of the primary sequence and secondary structures showed further similarities between the two subgenomic promoters. The basal portion of SL2, encompassing the transcription start site, was essential for transcription activity in each promoter, while SL1 and the upper portion of SL2 played a role in transcription enhancement. Both the 5′ untranslated region (UTR) and the last 87 nt at the 3′ UTR of HCRSV genomic RNA are likely to be the putative genomic plus-strand and minus-strand promoters, respectively. They function well as individual sgRNA promoters to produce ectopic subgenomic RNAs in vivo but not to the same levels of the actual sgRNA promoters. This suggests that HCRSV sgRNA promoters share common features with the promoters for genomic plus-strand and minus-strand RNA synthesis. To our knowledge, this is the first demonstration that both the 5′ UTR and part of the 3′ UTR can be duplicated and function as sgRNA promoters within a single viral genome. Copyright © 2006, American Society for Microbiology. All Rights Reserved.
Source Title: Journal of Virology
URI: http://scholarbank.nus.edu.sg/handle/10635/100079
ISSN: 0022538X
DOI: 10.1128/JVI.80.7.3395-3405.2006
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