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  • 1
    Language: English
    In: Molecular Cell, 04 February 2016, Vol.61(3), pp.352-363
    Description: Small RNAs (sRNAs) from conserved noncoding genes are crucial regulators in bacterial signaling pathways but have remained elusive in the Cpx response to inner membrane stress. Here we report that an alternative biogenesis pathway releasing the conserved mRNA 3′ UTR of stress chaperone CpxP as an ∼60-nt sRNA provides the noncoding arm of the Cpx response. This so-called CpxQ sRNA, generated by general mRNA decay through RNase E, acts as an Hfq-dependent repressor of multiple mRNAs encoding extracytoplasmic proteins. Both CpxQ and the Cpx pathway are required for cell survival under conditions of dissipation of membrane potential. Our discovery of CpxQ illustrates how the conversion of a transcribed 3′ UTR into an sRNA doubles the output of a single mRNA to produce two factors with spatially segregated functions during inner membrane stress: a chaperone that targets problematic proteins in the periplasm and a regulatory RNA that dampens their synthesis in the cytosol. Chao and Vogel discover that a small RNA cleaved off the 3′ end of an mRNA provides the elusive regulatory noncoding arm of the bacterial Cpx response to inner membrane stress.
    Keywords: Cpx Pathway ; Cpxp ; Cpxq ; 3′ Utr ; Hfq ; Rnase E ; Noncoding RNA ; Nhab ; Envelope Stress ; Membrane Potential ; Biology
    ISSN: 1097-2765
    E-ISSN: 1097-4164
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  • 2
    Language: English
    In: Genes & development, 15 May 2013, Vol.27(10), pp.1073-8
    Description: The abundant RNA-binding proteins CsrA and Hfq each impact bacterial physiology by working in conjunction with small RNAs to control large post-transcriptional regulons. The small RNAs involved were considered mechanistically distinct, regulating mRNAs either directly through Hfq-mediated base-pairing or indirectly by sequestering the global translational repressor CsrA. In this issue of Genes & Development, Jørgensen and colleagues (pp. 1132-1145) blur these distinctions with a dual-mechanism small RNA that acts through both Hfq and CsrA to regulate the formation of bacterial biofilms.
    Keywords: Csra ; Csrb ; Hfq ; Pga ; C-Di-Gmp ; Gene Expression Regulation, Bacterial ; Biofilms -- Growth & Development ; Escherichia Coli -- Genetics ; RNA, Bacterial -- Genetics
    ISSN: 08909369
    E-ISSN: 1549-5477
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  • 3
    Language: English
    In: Molecular Cell, 05 January 2017, Vol.65(1), pp.39-51
    Description: Understanding RNA processing and turnover requires knowledge of cleavages by major endoribonucleases within a living cell. We have employed TIER-seq (transiently inactivating an endoribonuclease followed by RNA-seq) to profile cleavage products of the essential endoribonuclease RNase E in . A dominating cleavage signature is the location of a uridine two nucleotides downstream in a single-stranded segment, which we rationalize structurally as a key recognition determinant that may favor RNase E catalysis. Our results suggest a prominent biogenesis pathway for bacterial regulatory small RNAs whereby RNase E acts together with the RNA chaperone Hfq to liberate stable 3′ fragments from various precursor RNAs. Recapitulating this process in vitro, Hfq guides RNase E cleavage of a representative small-RNA precursor for interaction with a mRNA target. In vivo, the processing is required for target regulation. Our findings reveal a general maturation mechanism for a major class of post-transcriptional regulators. Chao et al. discover that the essential bacterial RNase E cleaves numerous transcripts at preferred sites by sensing uridine as a 2-nt ruler. RNase E processing of various precursor RNAs produces many small regulatory RNAs, constituting a major small-RNA biogenesis pathway in bacteria.
    Keywords: Rnase E ; RNA Degradome ; Non-Coding RNA ; Hfq ; 3′ Utr ; Arcz ; Rpra ; Srna Maturation ; Uridine Ruler ; Tier-Seq ; Biology
    ISSN: 1097-2765
    E-ISSN: 1097-4164
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  • 4
    Language: English
    In: Genes & Development, 2005, Vol.19(19), pp.2355-2366
    Description: This paper shows that the small RNA MicA (previously SraD) is an antisense regulator of ompA in Escherichia coli. MicA accumulates upon entry into stationary phase and down-regulates the level of ompA mRNA. Regulation of ompA (outer membrane protein A), previously attributed to Hfq/mRNA binding, is lost...
    Keywords: Medical And Health Sciences ; Medicin Och Hälsovetenskap ; Antisense Rna ; Hfq ; Ompa ; Regulatory Rna ; Translational Control
    ISSN: 0890-9369
    E-ISSN: 15495477
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