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] |
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| Organism | |
| Number of Samples | 3 |
| Release Date | 2017/11/24 00:00 |
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Study Links
| GWIPS-viz | Trips-Viz |
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Repository Details
| SRA | SRP125609 |
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| ENA | SRP125609 |
| GEO | GSE107328 |
| BioProject | PRJNA419768 |
Publication
| Title | |
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| 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) | ||
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| SRR6322030 | PRJNA419768 | Escherichia coli | 0.0 | Ribo-Seq | 0.0 |  |
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| SRR6322031 | PRJNA419768 | Escherichia coli | 0.0 | Ribo-Seq | 0.0 | |
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| SRR6322032 | PRJNA419768 | Escherichia coli | 0.0 | Ribo-Seq | 0.0 | |
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| 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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