Saito et al. 2020 (PRJNA636967)
General Details
Title | RRF plays critical roles in ribosome homeostasis in E. coli but has little effect on translational coupling |
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Organism | |
Number of Samples | 12 |
Release Date | 2020/06/03 00:00 |
Sequencing Types | |
Protocol Details |
Study Links
GWIPS-viz | Trips-Viz |
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Repository Details
SRA | SRP265779 |
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ENA | SRP265779 |
GEO | GSE151688 |
BioProject | PRJNA636967 |
Publication
Title | |
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Authors | Saito K, Green R, Buskirk AR |
Journal | eLife |
Publication Date | 2020 Sep 23 |
Abstract | We used ribosome profiling to characterize the biological role of ribosome recycling factor (RRF) in Escherichia coli . As expected, RRF depletion leads to enrichment of post-termination 70S complexes in 3'-UTRs. We also observe that elongating ribosomes are unable to complete translation because they are blocked by non-recycled ribosomes at stop codons. Previous studies have suggested a role for recycling in translational coupling within operons; if a ribosome remains bound to an mRNA after termination, it may re-initiate downstream. We found, however, that RRF depletion did not significantly affect coupling efficiency in reporter assays or in ribosome density genome-wide. These findings argue that re-initiation is not a major mechanism of translational coupling in E. coli . Finally, RRF depletion has dramatic effects on the activity of ribosome rescue factors tmRNA and ArfA. Our results provide a global view of the effects of the loss of ribosome recycling on protein synthesis in E. coli. © 2020, Saito et al. |
PMC | PMC7538156 |
PMID | 32965213 |
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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SRR11915743 | PRJNA636967 | Escherichia coli | 0.0 | Ribo-Seq | 0.0 | ||||||||
SRR11915744 | PRJNA636967 | Escherichia coli | 0.0 | Ribo-Seq | 0.0 | ||||||||
SRR11915745 | PRJNA636967 | Escherichia coli | 0.0 | Ribo-Seq | 0.0 | ||||||||
SRR11915746 | PRJNA636967 | Escherichia coli | 0.0 | Ribo-Seq | 0.0 | ||||||||
SRR11915747 | PRJNA636967 | Escherichia coli | 0.0 | Ribo-Seq | 0.0 | ||||||||
SRR11915748 | PRJNA636967 | Escherichia coli | 0.0 | Ribo-Seq | 0.0 | ||||||||
SRR11915749 | PRJNA636967 | Escherichia coli | 0.0 | Ribo-Seq | 0.0 | ||||||||
SRR11915750 | PRJNA636967 | Escherichia coli | 0.0 | Ribo-Seq | 0.0 | ||||||||
SRR11915751 | PRJNA636967 | Escherichia coli | 0.0 | Ribo-Seq | 0.0 | ||||||||
SRR11915752 | PRJNA636967 | Escherichia coli | 0.0 | Ribo-Seq | 0.0 | ||||||||
SRR11915753 | PRJNA636967 | Escherichia coli | 0.0 | Ribo-Seq | 0.0 | ||||||||
SRR11915754 | PRJNA636967 | Escherichia coli | 0.0 | Ribo-Seq | 0.0 | ||||||||
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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