Three essential ribonucleases-RNase Y, J1, and III-control the abundance of a majority of Bacillus subtilis mRNAs

Bacillus subtilis possesses three essential enzymes thought to be involved in mRNA decay to varying degrees, namely RNase Y, RNase J1, and RNase III. Using recently developed high-resolution tiling arrays, we examined the effect of depletion of each of these enzymes on RNA abundance over the whole g...

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Bibliographic Details
Published in:PLoS genetics 2012-03, Vol.8 (3), p.e1002520-e1002520
Main Authors: Durand, Sylvain, Gilet, Laetitia, Bessières, Philippe, Nicolas, Pierre, Condon, Ciarán
Format: Article
Language:English
Subjects:
Bacillus subtilis
Bacillus subtilis - enzymology
Bacterial genetics
Bacteriology
Biology
Computer Science
E coli
Escherichia coli
Experiments
Gene Expression Regulation, Bacterial
Genes, Bacterial
Genetic aspects
Genome, Bacterial
Hypotheses
Life Sciences
Mathematics
Messenger RNA
Microbiology
Nucleases
Physiological aspects
Ribonuclease III - antagonists & inhibitors
Ribonuclease III - genetics
RNA Stability - genetics
RNA, Messenger - genetics
RNA, Messenger - metabolism
Yeast
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Summary:Bacillus subtilis possesses three essential enzymes thought to be involved in mRNA decay to varying degrees, namely RNase Y, RNase J1, and RNase III. Using recently developed high-resolution tiling arrays, we examined the effect of depletion of each of these enzymes on RNA abundance over the whole genome. The data are consistent with a model in which the degradation of a significant number of transcripts is dependent on endonucleolytic cleavage by RNase Y, followed by degradation of the downstream fragment by the 5'-3' exoribonuclease RNase J1. However, many full-size transcripts also accumulate under conditions of RNase J1 insufficiency, compatible with a model whereby RNase J1 degrades transcripts either directly from the 5' end or very close to it. Although the abundance of a large number of transcripts was altered by depletion of RNase III, this appears to result primarily from indirect transcriptional effects. Lastly, RNase depletion led to the stabilization of many low-abundance potential regulatory RNAs, both in intergenic regions and in the antisense orientation to known transcripts.
ISSN:1553-7404
1553-7390
1553-7404
DOI:10.1371/journal.pgen.1002520