Transcriptome Wide Annotation of Eukaryotic RNase III Reactivity and Degradation Signals

Transcriptome Wide Annotation of Eukaryotic RNase III Reactivity and Degradation Signals

Detection and validation of the RNA degradation signals controlling transcriptome stability are essential steps for understanding how cells regulate gene expression. Here we present complete genomic and biochemical annotations of the signals required for RNA degradation by the dsRNA specific ribonuc...

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Main Authors: Gagnon, Jules, Lavoie, Mathieu, Catala, Mathieu, Malenfant, Francis, Elela, Sherif Abou
Format: Online
Language:English
Published: Public Library of Science 2015
Online Access:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4334505/
id pubmed-4334505
recordtype oai_dc
spelling pubmed-43345052015-02-24 Transcriptome Wide Annotation of Eukaryotic RNase III Reactivity and Degradation Signals Gagnon, Jules Lavoie, Mathieu Catala, Mathieu Malenfant, Francis Elela, Sherif Abou Research Article Detection and validation of the RNA degradation signals controlling transcriptome stability are essential steps for understanding how cells regulate gene expression. Here we present complete genomic and biochemical annotations of the signals required for RNA degradation by the dsRNA specific ribonuclease III (Rnt1p) and examine its impact on transcriptome expression. Rnt1p cleavage signals are randomly distributed in the yeast genome, and encompass a wide variety of sequences, indicating that transcriptome stability is not determined by the recurrence of a fixed cleavage motif. Instead, RNA reactivity is defined by the sequence and structural context in which the cleavage sites are located. Reactive signals are often associated with transiently expressed genes, and their impact on RNA expression is linked to growth conditions. Together, the data suggest that Rnt1p reactivity is triggered by malleable RNA degradation signals that permit dynamic response to changes in growth conditions. Public Library of Science 2015-02-13 /pmc/articles/PMC4334505/ /pubmed/25680180 http://dx.doi.org/10.1371/journal.pgen.1005000 Text en © 2015 Gagnon et al http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.
repository_type Open Access Journal
institution_category Foreign Institution
institution US National Center for Biotechnology Information
building NCBI PubMed
collection Online Access
language English
format Online
author Gagnon, Jules
Lavoie, Mathieu
Catala, Mathieu
Malenfant, Francis
Elela, Sherif Abou
spellingShingle Gagnon, Jules
Lavoie, Mathieu
Catala, Mathieu
Malenfant, Francis
Elela, Sherif Abou
Transcriptome Wide Annotation of Eukaryotic RNase III Reactivity and Degradation Signals
author_facet Gagnon, Jules
Lavoie, Mathieu
Catala, Mathieu
Malenfant, Francis
Elela, Sherif Abou
author_sort Gagnon, Jules
title Transcriptome Wide Annotation of Eukaryotic RNase III Reactivity and Degradation Signals
title_short Transcriptome Wide Annotation of Eukaryotic RNase III Reactivity and Degradation Signals
title_full Transcriptome Wide Annotation of Eukaryotic RNase III Reactivity and Degradation Signals
title_fullStr Transcriptome Wide Annotation of Eukaryotic RNase III Reactivity and Degradation Signals
title_full_unstemmed Transcriptome Wide Annotation of Eukaryotic RNase III Reactivity and Degradation Signals
title_sort transcriptome wide annotation of eukaryotic rnase iii reactivity and degradation signals
description Detection and validation of the RNA degradation signals controlling transcriptome stability are essential steps for understanding how cells regulate gene expression. Here we present complete genomic and biochemical annotations of the signals required for RNA degradation by the dsRNA specific ribonuclease III (Rnt1p) and examine its impact on transcriptome expression. Rnt1p cleavage signals are randomly distributed in the yeast genome, and encompass a wide variety of sequences, indicating that transcriptome stability is not determined by the recurrence of a fixed cleavage motif. Instead, RNA reactivity is defined by the sequence and structural context in which the cleavage sites are located. Reactive signals are often associated with transiently expressed genes, and their impact on RNA expression is linked to growth conditions. Together, the data suggest that Rnt1p reactivity is triggered by malleable RNA degradation signals that permit dynamic response to changes in growth conditions.
publisher Public Library of Science
publishDate 2015
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4334505/
_version_ 1613190492120416256

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