Identification of stable, high copy number, medium-sized RNA degradation intermediates that accumulate in plants under non-stress conditions

Identification of stable, high copy number, medium-sized RNA degradation intermediates that... It is becoming increasingly evident that the RNA degradome is a crucial component of the total cellular RNA pool. Here, we present an analysis of the medium-sized RNAs (midi RNAs) that form in Arabidopsis thaliana. Our analyses revealed that the midi RNA fraction contained mostly 20–70-nt-long fragments derived from various RNA species, including tRNA, rRNA, mRNA and snRNA. The majority of these fragments could be classified as stable RNA degradation intermediates (RNA degradants). Using two dimensional polyacrylamide gel electrophoresis, we demonstrated that high copy number RNA (hcn RNA) degradants appear in plant cells not only during stress, as it was earlier suggested. They are continuously produced also under physiological conditions. The data collected indicated that the accumulation pattern of the hcn RNA degradants is organ-specific and can be affected by various endogenous and exogenous factors. In addition, we demonstrated that selected degradants efficiently inhibit translation in vitro. Thus, the results of our studies suggest that hcn RNA degradants are likely to be involved in the regulation of gene expression in plants. http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Plant Molecular Biology Springer Journals

Identification of stable, high copy number, medium-sized RNA degradation intermediates that accumulate in plants under non-stress conditions

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Publisher
Springer Netherlands
Copyright
Copyright © 2013 by The Author(s)
Subject
Life Sciences; Plant Sciences; Biochemistry, general; Plant Pathology
ISSN
0167-4412
eISSN
1573-5028
D.O.I.
10.1007/s11103-013-0079-3
Publisher site
See Article on Publisher Site

Abstract

It is becoming increasingly evident that the RNA degradome is a crucial component of the total cellular RNA pool. Here, we present an analysis of the medium-sized RNAs (midi RNAs) that form in Arabidopsis thaliana. Our analyses revealed that the midi RNA fraction contained mostly 20–70-nt-long fragments derived from various RNA species, including tRNA, rRNA, mRNA and snRNA. The majority of these fragments could be classified as stable RNA degradation intermediates (RNA degradants). Using two dimensional polyacrylamide gel electrophoresis, we demonstrated that high copy number RNA (hcn RNA) degradants appear in plant cells not only during stress, as it was earlier suggested. They are continuously produced also under physiological conditions. The data collected indicated that the accumulation pattern of the hcn RNA degradants is organ-specific and can be affected by various endogenous and exogenous factors. In addition, we demonstrated that selected degradants efficiently inhibit translation in vitro. Thus, the results of our studies suggest that hcn RNA degradants are likely to be involved in the regulation of gene expression in plants.

Journal

Plant Molecular BiologySpringer Journals

Published: May 25, 2013

References

  • Small non-coding RNAs mount a silent revolution in gene expression
    Aalto, AP; Pasquinelli, AE
  • Partially redundant functions of Arabidopsis DICER-like enzymes and a role for DCL4 in producing trans-acting siRNAs
    Gasciolli, V; Mallory, AC; Bartel, DP; Vaucheret, H
  • The many pathways of RNA degradation
    Houseley, J; Tollervey, D
  • Hidden layers of human small RNAs
    Kawaji, H; Nakamura, M; Takahashi, Y; Sandelin, A; Katayama, S; Fukuda, S; Daub, CO; Kai, C; Kawai, J; Yasuda, J; Carninci, P; Hayashizaki, Y
  • DICER-LIKE1: blind men and elephants in Arabidopsis development
    Schauer, SE; Jacobsen, SE; Meinke, DW; Ray, A
  • Small RNAs derived from snoRNAs
    Taft, RJ; Glazov, EA; Lassmann, T; Hayashizaki, Y; Carninci, P; Mattick, JS
  • DICER-LIKE 4 functions in trans-acting small interfering RNA biogenesis and vegetative phase change in Arabidopsis thaliana
    Xie, Z; Allen, E; Wilken, A; Carrington, JC
  • Angiogenin cleaves tRNA and promotes stress-induced translational repression
    Yamasaki, S; Ivanov, P; Hu, GF; Anderson, P

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