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Series GSE149279 Query DataSets for GSE149279
Status Public on Oct 06, 2020
Title 4EHP and GIGYF1/2 induce translation-coupled messenger RNA decay [Wildtype and ZNF598-null]
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Although canonical mRNA degradation is generally recognized to be translation dependent, our understanding of the molecular events that coordinate ribosome movement with the decay machinery is still limited. Here, we show that the 4EHP–GIGYF1/2 complex triggers co-translational mRNA decay as a result of altered ribosome activity during elongation. Human cells lacking 4EHP and GIGYF1 and 2 proteins accumulate transcripts known to be degraded in a translation dependent manner or with prominent ribosome pausing. These include mRNAs encoding secretory and membrane-bound proteins or specific tubulin isotypes, among others. 4EHP–GIGYF1/2 fails to reduce target mRNA levels in the absence of ribosome stalling or upon disruption of its interaction with the cap structure, DDX6 and a GYF domain-associated protein. Our studies reveal how a repressor complex linked to neurological disorders minimizes the protein output of a subset of mRNAs.
Overall design Two cell types with two biological replicates analysed using RNA-Seq and Ribo-Seq
Contributor(s) Weber R, Igreja C
Citation(s) 33053355
Submission date Apr 24, 2020
Last update date Jan 15, 2021
Contact name Ramona Weber
Organization name University of Zurich
Department Institute for Regenerative Medicine
Street address Wagistrasse 12
City Schlieren
ZIP/Postal code 8952
Country Switzerland
Platforms (1)
GPL21290 Illumina HiSeq 3000 (Homo sapiens)
Samples (8)
GSM4495441 Wild-type, control replicate 1 for RNA-seq
GSM4495442 Wild-type, control replicate 2 for RNA-seq
GSM4495443 ZNF598-null replicate 1 for RNA-seq
BioProject PRJNA627881
SRA SRP258289

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE149279_DE-RNA_ZNF598_vs_wt.txt.gz 368.6 Kb (ftp)(http) TXT
GSE149279_DE-Ribo_ZNF598_vs_wt.txt.gz 340.8 Kb (ftp)(http) TXT
GSE149279_TE_ZNF598_vs_wt.txt.gz 410.8 Kb (ftp)(http) TXT
GSE149279_readcounts_RNA.txt.gz 269.9 Kb (ftp)(http) TXT
GSE149279_readcounts_Ribo.txt.gz 240.9 Kb (ftp)(http) TXT
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Processed data are available on Series record

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