ArticleNucleic acids research2024
Global Hfq-mediated RNA interactome of nitrogen starved Escherichia coli uncovers a conserved post-transcriptional regulatory axis required for optimal growth recovery.
Article in Nucleic acids research, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed, 18 citations in OpenAlex.
- Premature transcription termination modulates stochastic gene expression in bacteria.Science advances · 2026Article
- Glutathione impacts Hfq condensation in nitrogen-starvedJournal of bacteriology · 2026Article
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- Hfq modulates system-wide regulatory networks controlling biocontrol property inSynthetic and systems biotechnology · 2026Article
- Article
- Virulence regulation in the fish pathogenFrontiers in cellular and infection microbiology · 2026Review
- Phage-encoded small RNA hijacks host replication machinery to support the phage lytic cycle.Molecular cell · 2025Article
- Deletion of sRNA0024 Reduces Virulence ofAnimals : an open access journal from MDPI · 2025Article
- 3'UTR-derived small RNA couples acid resistance to metabolic reprogramming of Salmonella within macrophages.Nucleic acids research · 2025Article
- Condensation of the RNA chaperone Hfq is coupled to inhibition of glucose uptake and contributes to the stabilization of regulatory RNAs in nitrogen-starved Escherichia coli.Nucleic acids research · 2025Article
- Polyphosphate: The "Dark Matter" of Bacterial Chromatin Structure.Molecular microbiology · 2025Review
- Transcriptome-scale analysis uncovers conserved residues in the hydrophobic core of the bacterial RNA chaperone Hfq required for small regulatory RNA stability.Nucleic acids research · 2025Article
- Biological Insights from RNA-RNA Interactomes in Bacteria, as Revealed by RIL-seq.Methods in molecular biology (Clifton, N.J.) · 2025Review
- Control of iron acquisition by multiple small RNAs unravels a new role for transcriptional terminator loops in gene regulation.Nucleic acids research · 2024Article
Corrections and comments
- Erratum issued
Authors and funding
8 authors at 4 institutions in 2 countries.
Funding
Abstract
The RNA binding protein Hfq has a central role in the post-transcription control of gene expression in many bacteria. Numerous studies have mapped the transcriptome-wide Hfq-mediated RNA-RNA interactions in growing bacteria or bacteria that have entered short-term growth-arrest. To what extent post-transcriptional regulation underpins gene expression in growth-arrested bacteria remains unknown. Here, we used nitrogen (N) starvation as a model to study the Hfq-mediated RNA interactome as Escherichia coli enter, experience, and exit long-term growth arrest. We observe that the Hfq-mediated RNA interactome undergoes extensive changes during N starvation, with the conserved SdsR sRNA making the most interactions with different mRNA targets exclusively in long-term N-starved E. coli. Taking a proteomics approach, we reveal that in growth-arrested cells SdsR influences gene expression far beyond its direct mRNA targets. We demonstrate that the absence of SdsR significantly compromises the ability of the mutant bacteria to recover growth competitively from the long-term N-starved state and uncover a conserved post-transcriptional regulatory axis which underpins this process.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.