Lareau et al. 2014 (PRJNA251988)

General Details

Title Distinct stages of the translation elongation cycle revealed by sequencing ribosome-protected mRNA fragments
Organism
Number of Samples 12
Release Date 2014/06/09 00:00
Sequencing Types
Protocol Details

Study Links

Repository Details

SRA SRP043036
ENA SRP043036
GEO GSE58321
BioProject PRJNA251988

Publication

Title
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)
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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