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| Status |
Public on Apr 28, 2020 |
| Title |
Rules governing translation selectivity under limiting ribosome availability |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
|
| Summary |
Ribosomopathies are cell-type-specific pathologies related to a ribosomal protein (RP) gene insult. The 5q- syndrome is a somatic ribosomopathy linked to RPS14 gene haploinsufficiency and characterized by a prominent erythroid hypoplasia. Using quantitative proteomic, we show that GATA1 protein expression is low in shRPS14 cells in which ribosome quantities are diminished. Here, we investigated the cause of low GATA1 protein expression in limiting ribosome availability. A global analysis of translation in RPs deficiencies highlights the rules that drive translation selectivity. We demonstrate that in addition of the transcript length, a high codon adaptation index (CAI) and a highly structured 3’UTR are the key characteristics for a selective translation. An integrated analysis of transcriptome and proteome confirms that the post-transcriptional regulations of gene expression are directly linked to the criteria governing the translational selectivity. In particular, these criteria explain GATA1 translation default with unprecedented precision. More generally, the proteins that accumulate along normal erythropoiesis share the determinants of translation selectivity revealed by the conditions of limiting ribosome availability.
We performed translatome expression profiling of cells infected with shRPS14 or shSCR
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| |
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| Overall design |
The purpose of the dataset is to profile analyze the effect of silencing RPS14
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| |
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| Contributor(s) |
Boussaid I, Fontenay M |
| Citation(s) |
32327500 |
| |
| Submission date |
Jan 08, 2019 |
| Last update date |
Jul 28, 2020 |
| Contact name |
Ismael Boussaid |
| E-mail(s) |
boussaid.ismael@gmail.com
|
| Phone |
+33618115659
|
| Organization name |
Inserm
|
| Lab |
Institut Cochin
|
| Street address |
22 Rue Mechain
|
| City |
Paris |
| ZIP/Postal code |
75014 |
| Country |
France |
| |
|
| Platforms (1) |
| GPL24299 |
[HTA-2_0] Affymetrix Human Transcriptome Array 2.0 [CDF: hta20_Hs_ENTREZG, Brainarray version 20.0.0] |
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| Samples (6)
|
| GSM3554212 |
K562_shSCR Translatome biological rep1 |
| GSM3554213 |
K562_shSCR Translatome biological rep2 |
| GSM3554214 |
K562_shRPS14 640 Translatome biological rep1 |
| GSM3554215 |
K562_shRPS14 640 Translatome biological rep2 |
| GSM3554216 |
K562_shRPS14 641 Translatome biological rep1 |
| GSM3554217 |
K562_shRPS14 641 Translatome biological rep2 |
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| This SubSeries is part of SuperSeries: |
| GSE108822 |
Integrated analyses of translatome and proteome identify the rules of translation selectivity in RPS14-deficient |
|
| Relations |
| BioProject |
PRJNA513511 |
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