ArticleRNA (New York, N.Y.)2015
SRD: a Staphylococcus regulatory RNA database.
Article in RNA (New York, N.Y.), 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 50 papers.
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Who cites it
50 citing papers in PubMed, 71 citations in OpenAlex.
- Discovery ofmBio · 2026Article
- A Zur-dependent regulatory RNA involved in maintaining zinc homeostasis in Staphylococcus aureus.Nucleic acids research · 2026Article
- The Small Noncoding RNA, RsaC, Is Essential for Staphylococcus aureus Virulence.The Journal of infectious diseases · 2026Article
- Targeting the stringent response alters gene expression and extracellular vesicle RNA inMicrobiology spectrum · 2026Article
- SmallBARNA 2026: a kingdom-wide bacterial sRNA resource.Nucleic acids research · 2026Article
- Gene regulation inMicrobiology and molecular biology reviews : MMBR · 2025Review
- sRNA-mediated crosstalk between cell wall stress and galactose metabolism in Staphylococcus aureus.Nucleic acids research · 2025Article
- Exploring the interactome of the Staphylococcus aureus sRNA Srn_9342 identified a complex formation with RNAIII leading to the modulation of δ-hemolysin expression.BMC microbiology · 2025Article
- Small regulatory RNA RSaX28 promotes virulence by reinforcing the stability of RNAIII in community-associated ST398 clonotypeEmerging microbes & infections · 2024Article
- The antivirulent Staphylococcal sRNA SprC regulates CzrB efflux pump to adapt its response to zinc toxicity.RNA (New York, N.Y.) · 2024Article
- RNAIII is linked with the pentose phosphate pathway through the activation of RpiRc inmSphere · 2024Article
- Identification ofVirulence · 2023Article
- Forecasting Staphylococcus aureus Infections Using Genome-Wide Association Studies, Machine Learning, and Transcriptomic Approaches.mSystems · 2022Article
- sRNA-controlled iron sparing response in Staphylococci.Nucleic acids research · 2022Article
- Thirty Years of sRNA-Mediated Regulation inInternational journal of molecular sciences · 2022Review
- RNase III-CLASH of multi-drug resistant Staphylococcus aureus reveals a regulatory mRNA 3'UTR required for intermediate vancomycin resistance.Nature communications · 2022Article
- RNase III CLASH in MRSA uncovers sRNA regulatory networks coupling metabolism to toxin expression.Nature communications · 2022Article
- StaphylococcalInternational journal of molecular sciences · 2022Article
- Small RNAs beyond Model Organisms: Have We Only Scratched the Surface?International journal of molecular sciences · 2022Article
- Insights Into the Impact of Small RNA SprC on the Metabolism and Virulence ofFrontiers in cellular and infection microbiology · 2022Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
An overflow of regulatory RNAs (sRNAs) was identified in a wide range of bacteria. We designed and implemented a new resource for the hundreds of sRNAs identified in Staphylococci, with primary focus on the human pathogen Staphylococcus aureus. The "Staphylococcal Regulatory RNA Database" (SRD, http://srd.genouest.org/) compiled all published data in a single interface including genetic locations, sequences and other features. SRD proposes novel and simplified identifiers for Staphylococcal regulatory RNAs (srn) based on the sRNA's genetic location in S. aureus strain N315 which served as a reference. From a set of 894 sequences and after an in-depth cleaning, SRD provides a list of 575 srn exempt of redundant sequences. For each sRNA, their experimental support(s) is provided, allowing the user to individually assess their validity and significance. RNA-seq analysis performed on strains N315, NCTC8325, and Newman allowed us to provide further details, upgrade the initial annotation, and identified 159 RNA-seq independent transcribed sRNAs. The lists of 575 and 159 sRNAs sequences were used to predict the number and location of srns in 18 S. aureus strains and 10 other Staphylococci. A comparison of the srn contents within 32 Staphylococcal genomes revealed a poor conservation between species. In addition, sRNA structure predictions obtained with MFold are accessible. A BLAST server and the intaRNA program, which is dedicated to target prediction, were implemented. SRD is the first sRNA database centered on a genus; it is a user-friendly and scalable device with the possibility to submit new sequences that should spread in the literature.
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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.