Kreuze, Jan
- Department of Plant Biology, Swedish University of Agricultural Sciences
- International Potato Center (CIP)
Research article2009Peer reviewedOpen access
Complete viral genome sequence and discovery of novel viruses by deep sequencing of small RNAs: A generic method for diagnosis, discovery and sequencing of viruses
Kreuze, Jan; Perez, Ana; Untiveros, Milton; Quispe, Dora; Fuentes, Segundo; Barker, Ian; Simon, Reinhard
Abstract
We report the first identification of novel viruses, and sequence of an entire vital genome, by a single step of high-throughput parallel sequencing of small RNAs from diseased, as well as symptomless plants. Contigs were assembled from sequenced total siRNA from plants using small sequence assembly software and could positively identify RNA, ssDNA and dsDNA reverse transcribing viruses and in one case spanned the entire genome. The results present a novel approach which cannot only identify known vital pathogens, Occurring at extremely low titers, but also novel viruses, without the necessity of any prior knowledge. (C) 2009 Elsevier Inc. All rights reserved.
Keywords
siRNA; Deep sequencing; Viral diagnostics; Plant viruses; Virus discovery; Sweetpotato; Badnavirus; Mastrevirus; Potyvirus; Crinivirus; Short sequence assembly
Published in
Virology
2009, volume: 388, number: 1, pages: 1-7
Publisher: ACADEMIC PRESS INC ELSEVIER SCIENCE
SLU Authors
UKÄ Subject classification
Agricultural Science
Publication identifier
- DOI: https://doi.org/10.1016/j.virol.2009.03.024
Permanent link to this page (URI)
https://res.slu.se/id/publ/61282