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Viruses 2018, 10(5), 257; https://doi.org/10.3390/v10050257

Time-Course Microarray Analysis Reveals Differences between Transcriptional Changes in Tomato Leaves Triggered by Mild and Severe Variants of Potato Spindle Tuber Viroid

1
Institute of Biochemistry and Biophysics Polish Academy of Sciences, Pawinskiego 5A, 02-106 Warsaw, Poland
2
Laboratory of Systems Biology, Faculty of Biology, University of Warsaw, 02-096 Warsaw, Poland
Deceased.
*
Author to whom correspondence should be addressed.
Received: 25 April 2018 / Revised: 9 May 2018 / Accepted: 12 May 2018 / Published: 15 May 2018
(This article belongs to the Special Issue Viroid-2018: International Conference on Viroids and Viroid-Like RNAs)
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Abstract

Viroids are small non-capsidated non-coding RNA replicons that utilize host factors for efficient propagation and spread through the entire plant. They can incite specific disease symptoms in susceptible plants. To better understand viroid-plant interactions, we employed microarray analysis to observe the changes of gene expression in “Rutgers” tomato leaves in response to the mild (M) and severe (S23) variants of potato spindle tuber viroid (PSTVd). The changes were analyzed over a time course of viroid infection development: (i) the pre-symptomatic stage; (ii) early symptoms; (iii) full spectrum of symptoms and (iv) the so-called ‘recovery’ stage, when stem regrowth was observed in severely affected plants. Gene expression profiles differed depending on stage of infection and variant. In S23-infected plants, the expression of over 3000 genes was affected, while M-infected plants showed 3-fold fewer differentially expressed genes, only 20% of which were specific to the M variant. The differentially expressed genes included many genes related to stress; defense; hormone metabolism and signaling; photosynthesis and chloroplasts; cell wall; RNA regulation, processing and binding; protein metabolism and modification and others. The expression levels of several genes were confirmed by nCounter analysis. View Full-Text
Keywords: viroid; potato spindle tuber viroid (PSTVd); microarray; transcriptome analysis; differentially expressed genes; nCounter analysis viroid; potato spindle tuber viroid (PSTVd); microarray; transcriptome analysis; differentially expressed genes; nCounter analysis
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Więsyk, A.; Iwanicka-Nowicka, R.; Fogtman, A.; Zagórski-Ostoja, W.; Góra-Sochacka, A. Time-Course Microarray Analysis Reveals Differences between Transcriptional Changes in Tomato Leaves Triggered by Mild and Severe Variants of Potato Spindle Tuber Viroid. Viruses 2018, 10, 257.

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