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TranscriptomicsCoding sequence targeting by MicC RNA reveals bacterial mRNA silencing downstream of translational initiation
It is well established that small noncoding RNAs (sRNAs) of bacteria recognize the 5â?? regions of target mRNAs, generally at the ribosome binding site. Until now, the translated coding sequence (CDS) of mRNA appeared to be refractory to sRNA interactions. We have discovered that Salmonella MicC RNA...
ORGANISM(S): Salmonella enterica 
2010-05-16 | E-GEOD-16540 | biostudies-arrayexpress
TranscriptomicsThe ancestral SgrS RNA discriminates horizontally acquired Salmonella mRNAs through a single G-U wobble pair
SgrS RNA is a model for the large class of Hfq-associated small RNAs that act to post-transcriptionally regulate bacterial mRNAs. The function of SgrS is well-characterized in non-pathogenic Escherichia coli where it was originally shown to counteract glucose-phosphate stress by acting as a represso...
ORGANISM(S): Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344 
2012-01-20 | E-GEOD-34851 | biostudies-arrayexpress
TranscriptomicsHfq-coIP overgrowth
The small RNAs associated with protein Hfq constitute one of the largest classes of post-transcriptional regulators known to date. Most previously investigated members of this class are encoded by conserved free-standing genes. Here, deep sequencing of Hfq-bound transcripts from multiple stages of g...
ORGANISM(S): Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344 
2012-10-01 | E-GEOD-38884 | biostudies-arrayexpress
TranscriptomicsSuperfolder GFP reporters validate diverse new mRNA targets of the classic porin regulator, MicF RNA
MicF is a textbook example of a small regulatory RNA (sRNA) that acts on a trans-encoded target mRNA through imperfect base paring. The discovery of MicF as a post-transcriptional repressor of the major Escherichia coli porin OmpF established the paradigm for a meanwhile common mechanism of translat...
ORGANISM(S): Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344 
2012-02-17 | E-GEOD-35848 | biostudies-arrayexpress
TranscriptomicsA small RNA activates CFA synthase by a reprogrammable mechanism of mRNA stabilization
Small RNAs use a diversity of well-characterized mechanisms to repress mRNAs, but how they activate gene expression at the mRNA level remains not well understood. The predominant activation mechanism of Hfq-associated small RNAs has been translational control whereby base-pairing with the target pre...
ORGANISM(S): Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344 
2013-06-24 | E-GEOD-48221 | biostudies-arrayexpress
TranscriptomicsSpecific and pleiotropic patterns of mRNA regulation by ArcZ
The small RNA, ArcZ (previously RyhA/SraH), was discovered in several genome-wide screens in Escherichia coli and Salmonella. Its high degree of genomic conservation, its frequent recovery by shotgun sequencing, and its association with the RNA chaperone, Hfq, identified ArcZ as an abundant enteroba...
ORGANISM(S): Salmonella enterica 
2009-10-19 | E-GEOD-17771 | biostudies-arrayexpress
TranscriptomicsIdentification of RNA molecules associated with the RNA-chaperone Hfq
We used high-throughput methods to discover the Salmonella RNAs that are targeted by the bacterial Sm-like protein, Hfq. Our generic approach, using chromosomal epitope tagging and coIP-on-chip will also be useful to identify the post-transcriptional regulons of many other RNA-binding proteins. Key...
ORGANISM(S): Salmonella enterica 
2010-06-20 | E-GEOD-10149 | biostudies-arrayexpress
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