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 |
|---|---|
| Organism | |
| Number of Samples | 12 |
| Release Date | 2020/06/03 00:00 |
| Sequencing Types | |
| Protocol Details |
Study Links
| GWIPS-viz | Trips-Viz |
|---|---|
Repository Details
| SRA | SRP265779 |
|---|---|
| ENA | SRP265779 |
| GEO | GSE151688 |
| BioProject | PRJNA636967 |
Publication
| Title | |
|---|---|
| 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) | ||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| SRR11915743 | PRJNA636967 | Escherichia coli | Ribo-Seq |  |
 |
 |
 |
|
|
||||
| SRR11915744 | PRJNA636967 | Escherichia coli | Ribo-Seq | |
|
|
|
|
|
||||
| SRR11915745 | PRJNA636967 | Escherichia coli | Ribo-Seq | |
|
|
|
|
|
||||
| SRR11915746 | PRJNA636967 | Escherichia coli | Ribo-Seq | |
|
|
|
|
|
||||
| SRR11915747 | PRJNA636967 | Escherichia coli | Ribo-Seq | |
|
|
|
|
|
||||
| SRR11915748 | PRJNA636967 | Escherichia coli | Ribo-Seq | |
|
|
|
|
|
||||
| SRR11915749 | PRJNA636967 | Escherichia coli | Ribo-Seq | |
|
|
|
|
|
||||
| SRR11915750 | PRJNA636967 | Escherichia coli | Ribo-Seq | |
|
|
|
|
|
||||
| SRR11915751 | PRJNA636967 | Escherichia coli | Ribo-Seq | |
|
|
|
|
|
||||
| SRR11915752 | PRJNA636967 | Escherichia coli | Ribo-Seq | |
|
|
|
|
|
||||
| SRR11915753 | PRJNA636967 | Escherichia coli | Ribo-Seq | |
|
|
|
|
|
||||
| SRR11915754 | PRJNA636967 | 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) |
ⓘ For more Information on the columns shown here see: About