Davis et al. 2014 (PRJNA245830)
General Details
Title | Sequence selectivity of macrolide-induced translational regulation |
---|---|
Organism | |
Number of Samples | 14 |
Release Date | 2014/04/29 00:00 |
Sequencing Types | |
Protocol Details |
Study Links
GWIPS-viz | Trips-Viz |
---|---|
Repository Details
SRA | SRP041549 |
---|---|
ENA | SRP041549 |
GEO | GSE57175 |
BioProject | PRJNA245830 |
Publication
Title | |
---|---|
Authors | Davis AR, Gohara DW, Yap MN |
Journal | Proceedings of the National Academy of Sciences of the United States of America |
Publication Date | 2014 Oct 28 |
Abstract | The prevailing 'plug-in-the-bottle' model suggests that macrolide antibiotics inhibit translation by binding inside the ribosome tunnel and indiscriminately arresting the elongation of every nascent polypeptide after the synthesis of six to eight amino acids. To test this model, we performed a genome-wide analysis of translation in azithromycin-treated Staphylococcus aureus. In contrast to earlier predictions, we found that the macrolide does not preferentially induce ribosome stalling near the 5' end of mRNAs, but rather acts at specific stalling sites that are scattered throughout the entire coding region. These sites are highly enriched in prolines and charged residues and are strikingly similar to other ligand-independent ribosome stalling motifs. Interestingly, the addition of structurally related macrolides had dramatically different effects on stalling efficiency. Our data suggest that ribosome stalling can occur at a surprisingly large number of low-complexity motifs in a fashion that depends only on a few arrest-inducing residues and the presence of a small molecule inducer. |
PMC | PMC4217412 |
PMID | 25313041 |
DOI |
Run Accession | Study Accession | Scientific Name | Cell Line | Library Type | Treatment | GWIPS-viz | Trips-Viz | Reads | BAM | BigWig (F) | BigWig (R) | ||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
SRR1265835 | PRJNA245830 | Staphylococcus aureus | 0.0 | 0.0 | 0.0 | ||||||||
SRR1265836 | PRJNA245830 | Staphylococcus aureus | 0.0 | Ribo-Seq | 0.0 | ||||||||
SRR1265838 | PRJNA245830 | Staphylococcus aureus | 0.0 | 0.0 | 0.0 | ||||||||
SRR1265839 | PRJNA245830 | Staphylococcus aureus | 0.0 | Ribo-Seq | 0.0 | ||||||||
SRR1265841 | PRJNA245830 | Staphylococcus aureus | 0.0 | 0.0 | 0.0 | ||||||||
SRR1265842 | PRJNA245830 | Staphylococcus aureus | 0.0 | Ribo-Seq | 0.0 | ||||||||
SRR1265844 | PRJNA245830 | Staphylococcus aureus | 0.0 | 0.0 | 0.0 | ||||||||
SRR1265845 | PRJNA245830 | Staphylococcus aureus | 0.0 | 0.0 | 0.0 | ||||||||
SRR1265847 | PRJNA245830 | Staphylococcus aureus | 0.0 | Ribo-Seq | 0.0 | ||||||||
SRR1265848 | PRJNA245830 | Staphylococcus aureus | 0.0 | Ribo-Seq | 0.0 | ||||||||
SRR1265837 | PRJNA245830 | Staphylococcus aureus | 0.0 | Ribo-Seq | 0.0 | ||||||||
SRR1265840 | PRJNA245830 | Staphylococcus aureus | 0.0 | Ribo-Seq | 0.0 | ||||||||
SRR1265843 | PRJNA245830 | Staphylococcus aureus | 0.0 | Ribo-Seq | 0.0 | ||||||||
SRR1265846 | PRJNA245830 | Staphylococcus aureus | 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) |
ⓘ For more Information on the columns shown here see: About