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

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 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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