Thompson et al. 2016 (PRJNA262036)

General Details

Title The ribosomal protein Asc1/RACK1 is required for efficient translation of short mRNAs
Organism
Number of Samples 36
Release Date 2014/09/25 00:00
Sequencing Types
Protocol Details

Study Links

Repository Details

SRA SRP047486
ENA SRP047486
GEO GSE61753
BioProject PRJNA262036

Publication

Title
Authors Thompson MK,Rojas-Duran MF,Gangaramani P,Gilbert WV
Journal eLife
Publication Date 2016 Apr 27
Abstract Translation is a core cellular process carried out by a highly conserved macromolecular machine, the ribosome. There has been remarkable evolutionary adaptation of this machine through the addition of eukaryote-specific ribosomal proteins whose individual effects on ribosome function are largely unknown. Here we show that eukaryote-specific Asc1/RACK1 is required for efficient translation of mRNAs with short open reading frames that show greater than average translational efficiency in diverse eukaryotes. ASC1 mutants in S. cerevisiae display compromised translation of specific functional groups, including cytoplasmic and mitochondrial ribosomal proteins, and display cellular phenotypes consistent with their gene-specific translation defects. Asc1-sensitive mRNAs are preferentially associated with the translational 'closed loop' complex comprised of eIF4E, eIF4G, and Pab1, and depletion of eIF4G mimics the translational defects of ASC1 mutants. Together our results reveal a role for Asc1/RACK1 in a length-dependent initiation mechanism optimized for efficient translation of genes with important housekeeping functions.
PMC PMC4848094
PMID 27117520
DOI
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)
SRR1585892 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585893 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585896 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585897 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585900 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585901 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585904 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585905 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585908 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585909 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585912 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585913 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585916 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585917 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585920 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585921 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585924 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585925 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585926 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585927 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585928 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585929 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585930 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585931 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585934 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585935 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR1585938 PRJNA262036 Saccharomyces cerevisiae RNA-Seq
SRR1585939 PRJNA262036 Saccharomyces cerevisiae RNA-Seq
SRR1585940 PRJNA262036 Saccharomyces cerevisiae RNA-Seq
SRR1585941 PRJNA262036 Saccharomyces cerevisiae RNA-Seq
SRR3312945 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR3312946 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR3312949 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR3312950 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR3312953 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
SRR3312954 PRJNA262036 Saccharomyces cerevisiae Ribo-Seq
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