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In depth sequencing of the siRNAs associated with peach latent mosaic viroid infection

ABSTRACT: Using a high-throughput sequencing approach we quantitatively analyzed the content of viroid-derived siRNAs of an infected tree. Our results show that the entire PLMVd genome is found in the siRNA population. Also both polarities are susceptible to be targeted by the RNAi machinery but specific regions for each polarity are over represented. Those regions, that are not the same for each polarity, do not necessarily correlate with double stranded regions that could be substrate for Dicer-like enzymes. Finally the analysis of the first 5’ nucleotide revealed a bias toward a C or a U in viroid-derived siRNAs, indicating that at least AGO5 and AGO1 can recruit these small RNAs. Analysis of siRNAs population from RNA sample isolated from a viroid-infected tree

ORGANISM(S): Prunus persica

SUBMITTER: Jean-Pierre Perreault

PROVIDER: E-GEOD-18764 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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In-depth sequencing of the siRNAs associated with peach latent mosaic viroid infection.

Bolduc François F Hoareau Christopher C St-Pierre Patrick P Perreault Jean-Pierre JP

BMC molecular biology 20100216

<h4>Background</h4>It has been observed that following viroid infection, there is an accumulation of viroid-derived siRNAs in infected plants. Some experimental results suggest that these small RNAs may be produced by the plant defense system to protect it from infection, indicating that viroids can elicit the RNA-silencing pathways. The objective of this study is to identify in the peach latent mosaic viroid (PLMVd), a model RNA genome, the regions that are most susceptible to RNA interference ...[more]

PMID: 20158907

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In depth sequencing of the siRNAs associated with peach latent mosaic viroid infection

Project description:Using a high-throughput sequencing approach we quantitatively analyzed the content of viroid-derived siRNAs of an infected tree. Our results show that the entire PLMVd genome is found in the siRNA population. Also both polarities are susceptible to be targeted by the RNAi machinery but specific regions for each polarity are over represented. Those regions, that are not the same for each polarity, do not necessarily correlate with double stranded regions that could be substrate for Dicer-like enzymes. Finally the analysis of the first 5’ nucleotide revealed a bias toward a C or a U in viroid-derived siRNAs, indicating that at least AGO5 and AGO1 can recruit these small RNAs.

2010-02-20 | GSE18764 | GEO

Dicer Partner Proteins Tune the Length of Mature miRNAs in Flies and Mammals

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2012-12-07 | E-GEOD-37443 | biostudies-arrayexpress

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2017-08-24 | E-MTAB-5745 | biostudies-arrayexpress

Three groups of transposable elements with contrasting copy number dynamics and host responses in the maize (Zea mays ssp. mays) genome

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Global effects of the CSR-1 RNA interference pathway on transcriptional landscape

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2014-02-28 | E-GEOD-49946 | biostudies-arrayexpress

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2014-06-01 | E-GEOD-52927 | biostudies-arrayexpress

Function, targets and evolution of Caenorhabditis elegans piRNAs (small RNA-Seq)

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2012-06-18 | E-GEOD-28617 | biostudies-arrayexpress

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2010-05-13 | E-GEOD-21825 | biostudies-arrayexpress

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2012-02-03 | E-GEOD-35550 | biostudies-arrayexpress

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