Wilczynska et al. 2019 (PRJNA556704)
General Details
| Title | A global overview of translation efficiency and ribosome occupancy at nucleotide resolution in HEK293 cells |
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| Organism | |
| Number of Samples | 3 |
| Release Date | 2019/07/19 00:00 |
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| Protocol Details |
Study Links
| GWIPS-viz | Trips-Viz |
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Repository Details
| SRA | SRP216422 |
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| ENA | SRP216422 |
| GEO | GSE134517 |
| BioProject | PRJNA556704 |
Publication
| Title | |
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| Authors | Wilczynska A, Gillen SL, Schmidt T, Meijer HA, Jukes-Jones R, Langlais C, Kopra K, Lu WT, Godfrey JD, Hawley BR, Hodge K, Zanivan S, Cain K, Le Quesne J, Bushell M |
| Journal | Genome biology |
| Publication Date | 2019 Dec 2 |
| Abstract | Regulation of the mRNA life cycle is central to gene expression control and determination of cell fate. miRNAs represent a critical mRNA regulatory mechanism, but despite decades of research, their mode of action is still not fully understood. Here, we show that eIF4A2 is a major effector of the repressive miRNA pathway functioning via the Ccr4-Not complex. We demonstrate that while DDX6 interacts with Ccr4-Not, its effects in the mechanism are not as pronounced. Through its interaction with the Ccr4-Not complex, eIF4A2 represses mRNAs at translation initiation. We show evidence that native eIF4A2 has similar RNA selectivity to chemically inhibited eIF4A1. eIF4A2 exerts its repressive effect by binding purine-rich motifs which are enriched in the 5'UTR of target mRNAs directly upstream of the AUG start codon. Our data support a model whereby purine motifs towards the 3' end of the 5'UTR are associated with increased ribosome occupancy and possible uORF activation upon eIF4A2 binding. |
| PMC | PMC6886185 |
| PMID | 31791371 |
| 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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| SRR9839460 | PRJNA556704 | Homo sapiens | HEK293 | Ribo-Seq | Cycloheximide |  |
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| SRR9839461 | PRJNA556704 | Homo sapiens | HEK293 | Ribo-Seq | Cycloheximide | |
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| SRR9839462 | PRJNA556704 | Homo sapiens | HEK293 | Ribo-Seq | Cycloheximide | |
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| 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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