Coupled degradation of a small regulatory RNA and its mRNA targets in Escherichia coli.

By É. Massé, Freddy E. Escorcia, S. Gottesman. Genes & Development, 2003

728 citations recorded by the source corpus.

RyhB is a small antisense regulatory RNA that is repressed by the Fur repressor and negatively regulates at least six mRNAs encoding Fe-binding or Fe-storage proteins in Escherichia coli. When Fe is limiting, RyhB levels rise, and target mRNAs are rapidly degraded. RyhB is very stable when measured after treatment of cells with the transcription inhibitor rifampicin, but is unstable when overall mRNA transcription continues. We propose that RyhB turnover is coupled to and dependent on pairing with the target mRNAs. Degradation of both mRNA targets and RyhB is dependent on RNase E and is slowed in degradosome mutants. RyhB requires the RNA chaperone Hfq. In the absence of Hfq, RyhB is unstable, even when general transcription is inhibited; degradation is dependent upon RNase E. Hfq and RNase E bind similar sites on the RNA; pairing may allow loss of Hfq and access by RNase E. Two other Hfq-dependent small RNAs, DsrA and OxyS, are also stable when overall transcription is off, and unstable when it is not, suggesting that they, too, are degraded when their target mRNAs are available for pairing. Thus, this large class of regulatory RNAs share an unexpected intrinsic mechanism for shutting off their action.

Subfields: Genetics, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/adece67cda34a67750d1fcc1da718669453452f5

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Citations in the corpus

Hfq and its constellation of RNA (2011, background): “One solution to this conundrum is for Hfq to be continuously released from the sRNA–mRNA complex as a result of RNase E-mediated, coupled degradation of the two RNAs in vivo”
Bacterial small RNA regulators: versatile roles and rapidly evolving variations. (2011, background): “Regulation of sRNAs solely by target mimics may be rare, but if the sRNAs are generally used stoichiometrically (Massé et al. 2003), all mRNA targets will act as competitors with one another, unless the sRNA is in excess.”
σE Regulates and Is Regulated by a Small RNA in Escherichia coli (2007, background): “The vast majority of the Hfq-binding sRNAs act negatively, to either inhibit translation or stimulate the degradation of the target mRNA, also resulting in degradation of the sRNA itself (26, 33, 56).”
The small RNA regulators of Escherichia coli: roles and mechanisms*. (2004, background): “This is most evident for RyhB, which can simultaneously downregulate many genes; if iron is limiting, this becomes necessary irrespective of the individual inducing signals for each of the genes.”
A genome-wide survey of sRNAs in the symbiotic nitrogen-fixing alpha-proteobacterium Sinorhizobium meliloti (2010, background): “The main mechanisms of sRNA-mediated control of gene expression are: repression [15-17] or activation of translation [18], mRNA degradation [19,20] or stabilization [21], and target mimicry [7,22].”
The Crp-Activated Small Noncoding Regulatory RNA CyaR (RyeE) Links Nutritional Status to Group Behavior (2008, background): “have shown that expression of RyhB sRNA leads to coupled degradation of RyhB and the mRNA encoding sodB by RNase E (37).”
RETRACTED ARTICLE: Strategies for efficient production of heterologous proteins in Escherichia coli (2005, background): “The other class of mRNA-protective elements consists of 39 UTR sequences that can form stem-loop structures, thereby blocking exonucleolytic degradation of the transcript from the 39 terminus (Massé et al. 2003).”
Regulation by Small RNAs in Bacteria: Expanding Frontiers (2011, neutral): “E. coli RyhB and other sRNAs undergo coupled degradation with mRNA targets by RNase E (Massé et al., 2003).”