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

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)

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