Lareau et al. 2014 (PRJNA251988)
General Details
Title | Distinct stages of the translation elongation cycle revealed by sequencing ribosome-protected mRNA fragments |
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Organism | |
Number of Samples | 12 |
Release Date | 2014/06/09 00:00 |
Sequencing Types | |
Protocol Details |
Study Links
GWIPS-viz | Trips-Viz |
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Visit GWIPS-viz |
Repository Details
SRA | SRP043036 |
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ENA | SRP043036 |
GEO | GSE58321 |
BioProject | PRJNA251988 |
Publication
Title | |
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Authors | Lareau LF,Hite DH,Hogan GJ,Brown PO |
Journal | eLife |
Publication Date | 2014 May 9 |
Abstract | During translation elongation, the ribosome ratchets along its mRNA template, incorporating each new amino acid and translocating from one codon to the next. The elongation cycle requires dramatic structural rearrangements of the ribosome. We show here that deep sequencing of ribosome-protected mRNA fragments reveals not only the position of each ribosome but also, unexpectedly, its particular stage of the elongation cycle. Sequencing reveals two distinct populations of ribosome footprints, 28-30 nucleotides and 20-22 nucleotides long, representing translating ribosomes in distinct states, differentially stabilized by specific elongation inhibitors. We find that the balance of small and large footprints varies by codon and is correlated with translation speed. The ability to visualize conformational changes in the ribosome during elongation, at single-codon resolution, provides a new way to study the detailed kinetics of translation and a new probe with which to identify the factors that affect each step in the elongation cycle.DOI: http://dx.doi.org/10.7554/eLife.01257.001. Copyright © 2014, Lareau et al. |
PMC | PMC4052883 |
PMID | 24842990 |
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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SRR1363412 | PRJNA251988 | Saccharomyces cerevisiae | untreated | ||||||||||
SRR1363413 | PRJNA251988 | Saccharomyces cerevisiae | untreated | ||||||||||
SRR1363414 | PRJNA251988 | Saccharomyces cerevisiae | untreated | ||||||||||
SRR1363415 | PRJNA251988 | Saccharomyces cerevisiae | Cycloheximide | ||||||||||
SRR1363416 | PRJNA251988 | Saccharomyces cerevisiae | Cycloheximide | ||||||||||
SRR1363417 | PRJNA251988 | Saccharomyces cerevisiae | Anisomycin | ||||||||||
SRR1363418 | PRJNA251988 | Saccharomyces cerevisiae | Anisomycin | ||||||||||
SRR1363419 | PRJNA251988 | Saccharomyces cerevisiae | Anisomycin | ||||||||||
SRR1363420 | PRJNA251988 | Saccharomyces cerevisiae | |||||||||||
SRR1363421 | PRJNA251988 | Saccharomyces cerevisiae | |||||||||||
SRR1363422 | PRJNA251988 | Saccharomyces cerevisiae | untreated | ||||||||||
SRR1363423 | PRJNA251988 | Saccharomyces cerevisiae | untreated | ||||||||||
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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