A Bioinformatics Pipeline for the Analysis and Target Prediction of RNA Effectors in Bidirectional Communication During Plant-Microbe Interactions - Research portal of Justus Liebig University Giessen:

Journal article

A Bioinformatics Pipeline for the Analysis and Target Prediction of RNA Effectors in Bidirectional Communication During Plant-Microbe Interactions

Authors list: Zanini, Silvia; Šečić, Ena; Jelonek, Lukas; Kogel, Karl-Heinz

Publication year: 2018

Journal: Frontiers in Plant Science

Volume number: 9

ISSN: 1664-462X

Open access status: Gold

DOI Link: https://doi.org/10.3389/fpls.2018.01212

Publisher: Frontiers Media

Abstract:
Small RNA (sRNA) molecules are key factors in the communication between hosts and their interacting pathogens, where they function as effectors that can modulate both host defense and microbial virulence/pathogenicity through a mechanism termed cross-kingdom RNA interference (ck-RNAi). Consistent with this recent knowledge, sRNAs and their double-stranded RNA precursor have been adopted to control diseases in crop plants, demonstrating a straight forward application of the new findings to approach agricultural problems. Despite the great interest in natural ck-RNAi, it is astonishing to find just a few additional examples in the literature since the first report was published in 2013. One reason might be that the identification of sRNA effectors is hampered both by technical challenges and lack of routine bioinformatics application strategies. Here, we suggest a practical procedure to find, characterize, and validate sRNA effectors in plant-microbe interaction. The aim of this review is not to present and discuss all possible tools, but to give guidelines toward the best established software available for the analysis.

Authors/Editors

- Prof. Dr. Karl-Heinz Kogel

Citation Styles

Harvard Citation style: Zanini, S., Šečić, E., Jelonek, L. and Kogel, K. (2018) A Bioinformatics Pipeline for the Analysis and Target Prediction of RNA Effectors in Bidirectional Communication During Plant-Microbe Interactions, Frontiers in Plant Science, 9, Article 1212. https://doi.org/10.3389/fpls.2018.01212

APA Citation style: Zanini, S., Šečić, E., Jelonek, L., & Kogel, K. (2018). A Bioinformatics Pipeline for the Analysis and Target Prediction of RNA Effectors in Bidirectional Communication During Plant-Microbe Interactions. Frontiers in Plant Science. 9, Article 1212. https://doi.org/10.3389/fpls.2018.01212

SDG Areas

3 Good health and well-being