Anguillid herpesvirus 1 transcriptome

van Beurden, S.J., Gatherer, D., Kerr, K., Galbraith, J., Herzyk, P., Peeters, B.P.H., Rottier, P.J.M., Engelsma, M.Y. and Davison, A.J. (2012) Anguillid herpesvirus 1 transcriptome. Journal of Virology, 86(18), pp. 10150-10161. (doi:10.1128/jvi.01271-12) (PMID:22787220) (PMCID:PMC3446616)

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Abstract

We used deep sequencing of poly(A) RNA to characterize the transcriptome of an economically important eel virus, anguillid herpesvirus 1 (AngHV1), at a stage during the lytic life cycle when infectious virus was being produced. In contrast to the transcription of mammalian herpesviruses, the overall level of antisense transcription from the 248,526-bp genome was low, amounting to only 1.5% of transcription in predicted protein-coding regions, and no abundant, nonoverlapping, noncoding RNAs were identified. RNA splicing was found to be more common than had been anticipated previously. Counting the 10,634-bp terminal direct repeat once, 100 splice junctions were identified, of which 58 were considered likely to be involved in the expression of functional proteins because they represent splicing between protein-coding exons or between 5′ untranslated regions and protein-coding exons. Each of the 30 most highly represented of these 58 splice junctions was confirmed by RT-PCR. We also used deep sequencing to identify numerous putative 5′ and 3′ ends of AngHV1 transcripts, confirming some and adding others by rapid amplification of cDNA ends (RACE). The findings prompted a revision of the AngHV1 genome map to include a total of 129 protein-coding genes, 5 of which are duplicated in the terminal direct repeat. Not counting duplicates, 11 genes contain integral, spliced protein-coding exons, and 9 contain 5′ untranslated exons or, because of alternative splicing, 5′ untranslated and 5′ translated exons. The results of this study sharpen our understanding of AngHV1 genomics and provide the first detailed view of a fish herpesvirus transcriptome.

Item Type:Articles
Status:Published
Refereed:Yes
Glasgow Author(s) Enlighten ID:Kerr, Mrs Karen and Gatherer, Dr Derek and Davison, Professor Andrew
Authors: van Beurden, S.J., Gatherer, D., Kerr, K., Galbraith, J., Herzyk, P., Peeters, B.P.H., Rottier, P.J.M., Engelsma, M.Y., and Davison, A.J.
College/School:College of Medical Veterinary and Life Sciences > Institute of Infection Immunity and Inflammation
Journal Name:Journal of Virology
Journal Abbr.:J. Virol.
ISSN:0022-538X
ISSN (Online):1098-5514
Published Online:11 July 2012

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