Bacillus subtilis RNase Y activity in vivo analysed by tiling microarrays
| Autor: | Anna Rocca, Soumaya Laalami, Harald Putzer, Pierre Nicolas, Léna Zig, Philippe Bessières |
|---|---|
| Přispěvatelé: | Gauthier, Laurence, Centre National de la Recherche Scientifique (CNRS), Unité Mathématique Informatique et Génome (MIG), Institut National de la Recherche Agronomique (INRA) |
| Jazyk: | angličtina |
| Rok vydání: | 2013 |
| Předmět: |
Bacillus subtilis
tiling microarray RNase Y mRNA decay riboswitch RNA Untranslated Microarrays [SDV]Life Sciences [q-bio] RNA Stability lcsh:Medicine RNase PH Biochemistry [MATH]Mathematics [math] lcsh:Science ComputingMilieux_MISCELLANEOUS 0303 health sciences Multidisciplinary biology Non-coding RNA Bacterial Biochemistry Nucleic acids Bacillus Subtilis Prokaryotic Models Research Article RNase P Endoribonuclease Microbiology 03 medical and health sciences Model Organisms Ribonucleases Endoribonucleases Genetics Escherichia coli [SDV.BBM] Life Sciences [q-bio]/Biochemistry Molecular Biology [INFO]Computer Science [cs] RNA Messenger RNase H Biology 030304 developmental biology 030306 microbiology lcsh:R RNA Computational Biology Bacteriology Gene Expression Regulation Bacterial Molecular biology RNase MRP RNA processing biology.protein lcsh:Q Gene expression Genome Bacterial |
| Zdroj: | Plos One 1 (8), 1-12. (2013) PLoS ONE PLoS ONE, Public Library of Science, 2013, 8 (1), pp.1-12. ⟨10.1371/journal.pone.0054062⟩ www.plosone.org PLoS ONE, Vol 8, Iss 1, p e54062 (2013) |
| ISSN: | 1932-6203 |
| DOI: | 10.1371/journal.pone.0054062⟩ |
| Popis: | International audience; RNase Y is a key endoribonuclease affecting global mRNA stability in Bacillus subtilis. Its characterization provided the first evidence that endonucleolytic cleavage plays a major role in the mRNA metabolism of this organism. RNase Y shares important functional features with the RNA decay initiating RNase E from Escherichia coli, notably a similar cleavage specificity and a preference for 5' monophosphorylated substrates. We used high-resolution tiling arrays to analyze the effect of RNase Y depletion on RNA abundance covering the entire genome. The data confirm that this endoribonuclease plays a key role in initiating the decay of a large number of mRNAs as well as non coding RNAs. The downstream cleavage products are likely to be degraded by the 5' exonucleolytic activity of RNases J1/J2 as we show for a specific case. Comparison of the data with that of two other recent studies revealed very significant differences. About two thirds of the mRNAs upregulated following RNase Y depletion were different when compared to either one of these studies and only about 10% were in common in all three studies. This highlights that experimental conditions and data analysis play an important role in identifying RNase Y substrates by global transcriptional profiling. Our data confirmed already known RNase Y substrates and due to the precision and reproducibility of the profiles allow an exceptionally detailed view of the turnover of hundreds of new RNA substrates. |
| Databáze: | OpenAIRE |
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