ArticleNucleic acids research2017
Identification of endoribonuclease specific cleavage positions reveals novel targets of RNase III in Streptococcus pyogenes.
Article in Nucleic acids research, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 26 citations in OpenAlex.
- Article
- The NagY antiterminator inMicrobiology spectrum · 2025Article
- Streptococcus pyogenes EVs induce the alternative inflammasome via caspase-4/-5 in human monocytes.EMBO reports · 2025Article
- Dynamics of diversified A-to-I editing in Streptococcus pyogenes is governed by changes in mRNA stability.Nucleic acids research · 2024Article
- RNase-mediated reprogramming of Yersinia virulence.PLoS pathogens · 2024Article
- tRNA anticodon cleavage by target-activated CRISPR-Cas13a effector.Science advances · 2024Article
- Expanding the genetic toolbox for the obligate human pathogenFrontiers in bioengineering and biotechnology · 2024Article
- Selective RNA Processing and Stabilization are Multi-Layer and Stoichiometric Regulators of Gene Expression in Escherichia coli.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2023Article
- Methodologies for bacterial ribonuclease characterization using RNA-seq.FEMS microbiology reviews · 2023Review
- Ribonuclease E strongly impacts bacterial adaptation to different growth conditions.RNA biology · 2023Article
- 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, Ribosome Biogenesis and Beyond.Microorganisms · 2021Review
- RNase III-mediated processing of aeLife · 2021Article
- Article
- An RNA-seq based comparative approach reveals the transcriptome-wide interplay between 3'-to-5' exoRNases and RNase Y.Nature communications · 2020Article
- Conserved and specific features of Streptococcus pyogenes and Streptococcus agalactiae transcriptional landscapes.BMC genomics · 2019Article
- Noncanonical features and modifications on the 5'-end of bacterial sRNAs and mRNAs.Wiley interdisciplinary reviews. RNA · 2019Review
- In vivo 3'-to-5' exoribonuclease targetomes ofProceedings of the National Academy of Sciences of the United States of America · 2018Article
- In vivo cleavage rules and target repertoire of RNase III in Escherichia coli.Nucleic acids research · 2018Article
- Discovering RNA-Based Regulatory Systems forFrontiers in cellular and infection microbiology · 2018Review
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Authors and funding
7 authors at 6 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
A better understanding of transcriptional and post-transcriptional regulation of gene expression in bacteria relies on studying their transcriptome. RNA sequencing methods are used not only to assess RNA abundance but also the exact boundaries of primary and processed transcripts. Here, we developed a method, called identification of specific cleavage position (ISCP), which enables the identification of direct endoribonuclease targets in vivo by comparing the 5΄ and 3΄ ends of processed transcripts between wild type and RNase deficient strains. To demonstrate the ISCP method, we used as a model the double-stranded specific RNase III in the human pathogen Streptococcus pyogenes. We mapped 92 specific cleavage positions (SCPs) among which, 48 were previously described and 44 are new, with the characteristic 2 nucleotides 3΄ overhang of RNase III. Most SCPs were located in untranslated regions of RNAs. We screened for RNase III targets using transcriptomic differential expression analysis (DEA) and compared those with the RNase III targets identified using the ISCP method. Our study shows that in S. pyogenes, under standard growth conditions, RNase III has a limited impact both on antisense transcripts and on global gene expression with the expression of most of the affected genes being downregulated in an RNase III deletion mutant.
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