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From current knowledge to best practice: A primer on Viral diagnostics using deep sequencing of virus-derived small interfering RNAs (vsiRNAs) in infected plants

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Title From current knowledge to best practice: A primer on Viral diagnostics using deep sequencing of virus-derived small interfering RNAs (vsiRNAs) in infected plants
 
Creator Vivek, A.T.
Zahra, Shafaque
Kumar, Shailesh
 
Subject Bioinformatics
Deep sequencing
vsiRNAs
plant viruses/viroids
viral diagnostics
 
Description Accepted date: 22 October 2019
Plants have evolved many defense strategies for combating viral infections. One major surveillance strategy adopted by them is manipulating viral sequences to generate distinct small RNA products via Dicer-like enzymes (DCL), and thereby restricting virus multiplication through the RNA interference (RNAi) mechanism. The power of high-throughput sequencing technologies, with diverse computational tools to handle small RNA sequencing (sRNA-Seq) data, bestows unprecedented opportunities to answer fundamental questions in plant virology. Here, we present some basic concepts of virus-derived, small interfering RNA (vsiRNA) biogenesis in plants, optimization strategies, caveats, and best practices for efficient discovery and diagnosis of known as well as novel plant viruses/viroids using deep sequencing of small RNA (sRNA) pools.
A.T. Vivek and Shafaque Zahra acknowledge DBT and CSIR, respectively, for providing fellowship support. The authors have used the BioRender tool for image creation.
 
Date 2019-11-04T09:46:10Z
2019-11-04T09:46:10Z
2020
 
Type Article
 
Identifier Methods, 183: 30-37
1046-2023
http://223.31.159.10:8080/jspui/handle/123456789/1011
https://www.sciencedirect.com/science/article/pii/S1046202319301744?via%3Dihub
https://doi.org/10.1016/j.ymeth.2019.10.009
 
Language en_US
 
Format application/pdf
 
Publisher Elsevier B.V.