Culviner et al. 2017 (PRJNA419768)

General Details

Title E. coli MazF does not create specialized ribosomes that translate leaderless mRNAs, but instead blocks rRNA maturation and ribosome biogenesis [Ribo-Seq]
Organism
Number of Samples 3
Release Date 2017/11/24 00:00
Sequencing Types
Protocol Details

Study Links

Repository Details

SRA SRP125609
ENA SRP125609
GEO GSE107328
BioProject PRJNA419768

Publication

Title
Authors Culviner PH,Laub MT
Journal Molecular cell
Publication Date 2018 Jun 7
Abstract Toxin-antitoxin systems are widely distributed genetic modules that regulate growth and persistence in bacteria. Many systems, including E. coli MazEF, include toxins that are endoribonucleases, but the full set of targets for these toxins remains poorly defined. Previous studies on a limited set of transcripts suggested that MazF creates a pool of leaderless mRNAs that are preferentially translated by specialized ribosomes created through MazF cleavage of mature 16S rRNA. Here, using paired-end RNA sequencing (RNA-seq) and ribosome profiling, we provide a comprehensive, global analysis of MazF cleavage specificity and its targets. We find that MazF cleaves most transcripts at multiple sites within their coding regions, with very few full-length, leaderless mRNAs created. Additionally, our results demonstrate that MazF does not create a large pool of specialized ribosomes but instead rapidly disrupts ribosome biogenesis by targeting both ribosomal protein transcripts and rRNA precursors, helping to inhibit cell growth. Copyright © 2018 Elsevier Inc. All rights reserved.
PMC PMC8317213
PMID 29861158
DOI
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)
SRR6322030 PRJNA419768 Escherichia coli Ribo-Seq
SRR6322031 PRJNA419768 Escherichia coli Ribo-Seq
SRR6322032 PRJNA419768 Escherichia coli Ribo-Seq
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)

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