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A search for small noncoding RNAs in Staphylococcus aureus reveals a conserved sequence motif for regulation.
- Source :
-
Nucleic acids research [Nucleic Acids Res] 2009 Nov; Vol. 37 (21), pp. 7239-57. - Publication Year :
- 2009
-
Abstract
- Bioinformatic analysis of the intergenic regions of Staphylococcus aureus predicted multiple regulatory regions. From this analysis, we characterized 11 novel noncoding RNAs (RsaA-K) that are expressed in several S. aureus strains under different experimental conditions. Many of them accumulate in the late-exponential phase of growth. All ncRNAs are stable and their expression is Hfq-independent. The transcription of several of them is regulated by the alternative sigma B factor (RsaA, D and F) while the expression of RsaE is agrA-dependent. Six of these ncRNAs are specific to S. aureus, four are conserved in other Staphylococci, and RsaE is also present in Bacillaceae. Transcriptomic and proteomic analysis indicated that RsaE regulates the synthesis of proteins involved in various metabolic pathways. Phylogenetic analysis combined with RNA structure probing, searches for RsaE-mRNA base pairing, and toeprinting assays indicate that a conserved and unpaired UCCC sequence motif of RsaE binds to target mRNAs and prevents the formation of the ribosomal initiation complex. This study unexpectedly shows that most of the novel ncRNAs carry the conserved C-rich motif, suggesting that they are members of a class of ncRNAs that target mRNAs by a shared mechanism.
- Subjects :
- Bacillus subtilis genetics
Bacillus subtilis metabolism
Base Sequence
Computational Biology
Conserved Sequence
Gene Expression Profiling
Molecular Sequence Data
Proteomics
RNA Stability
RNA, Messenger metabolism
RNA, Untranslated genetics
RNA, Untranslated metabolism
Transcription, Genetic
Gene Expression Regulation, Bacterial
RNA, Untranslated chemistry
Staphylococcus aureus genetics
Subjects
Details
- Language :
- English
- ISSN :
- 1362-4962
- Volume :
- 37
- Issue :
- 21
- Database :
- MEDLINE
- Journal :
- Nucleic acids research
- Publication Type :
- Academic Journal
- Accession number :
- 19786493
- Full Text :
- https://doi.org/10.1093/nar/gkp668