ArticleThe EMBO journal2012
An atlas of Hfq-bound transcripts reveals 3' UTRs as a genomic reservoir of regulatory small RNAs.
Article in The EMBO journal, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 243 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
243 citing papers in PubMed, 375 citations in OpenAlex.
- Identification and functional analysis of sRNAs inGenes & diseases · 2027Article
- A Zur-dependent regulatory RNA involved in maintaining zinc homeostasis in Staphylococcus aureus.Nucleic acids research · 2026Article
- From environmental signals to adaptive phenotypes: signal-responsive regulation and network logic of bacterial small RNAs.FEMS microbiology reviews · 2026Review
- A prophage-encoded sRNA limits phage infection of adherent-invasive E. coli.PLoS pathogens · 2026Article
- Rif-seq reveals Caulobacter crescentus mRNA decay is globally coordinated with transcription and translation.Cell reports · 2025Article
- Origin and adaptive evolutionary trajectory of the 3' UTR-derived sRNA UhpU in Enterobacteriaceae.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Twin Small RNAs and Divergent Fates: The Expansive Regulatory Networks of OmrA and OmrB.International journal of molecular sciences · 2025Review
- Intramacrophage RIL-seq uncovers an RNA antagonist of the Salmonella virulence-associated small RNA PinT.Nucleic acids research · 2025Article
- 3'UTR-derived small RNA couples acid resistance to metabolic reprogramming of Salmonella within macrophages.Nucleic acids research · 2025Article
- Development of two compatible plasmids to assess sRNA-mediated post-transcriptional regulation inMicrobiology (Reading, England) · 2025Article
- What makes a small RNA work?Nucleic acids research · 2025Review
- Article
- Control of iron acquisition by multiple small RNAs unravels a new role for transcriptional terminator loops in gene regulation.Nucleic acids research · 2024Article
- A phosphate starvation induced small RNA promotes Bacillus biofilm formation.NPJ biofilms and microbiomes · 2024Article
- A 3'UTR-derived small RNA represses pneumolysin synthesis and facilitates pneumococcal brain invasion.Communications biology · 2024Article
- Exploring the transcription start sites and other genomic features facilitates the accurate identification and annotation of small RNAs across multiple stress conditions in Mycobacterium tuberculosis.Functional & integrative genomics · 2024Article
- Hfq-binding small RNA PqsS regulates Pseudomonas aeruginosa pqs quorum sensing system and virulence.NPJ biofilms and microbiomes · 2024Article
- RIL-seq reveals extensive involvement of small RNAs in virulence and capsule regulation in hypervirulent Klebsiella pneumoniae.Nucleic acids research · 2024Article
- Unraveling the interplay between a small RNA and RNase E in bacteria.Nucleic acids research · 2024Article
- RNA interactome of hypervirulent Klebsiella pneumoniae reveals a small RNA inhibitor of capsular mucoviscosity and virulence.Nature communications · 2024Article
183 more citing papers are in PubMed but not listed here.
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The small RNAs associated with the 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 growth of Salmonella typhimurium revealed a plethora of new small RNA species from within mRNA loci, including DapZ, which overlaps with the 3' region of the biosynthetic gene, dapB. Synthesis of the DapZ small RNA is independent of DapB protein synthesis, and is controlled by HilD, the master regulator of Salmonella invasion genes. DapZ carries a short G/U-rich domain similar to that of the globally acting GcvB small RNA, and uses GcvB-like seed pairing to repress translation of the major ABC transporters, DppA and OppA. This exemplifies double functional output from an mRNA locus by the production of both a protein and an Hfq-dependent trans-acting RNA. Our atlas of Hfq targets suggests that the 3' regions of mRNA genes constitute a rich reservoir that provides the Hfq network with new regulatory small RNAs.
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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.