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| Status |
Public on Sep 27, 2023 |
| Title |
mRNA decapping activators Pat1 and Dhh1 regulate transcript abundance and translation to tune cellular responses to nutrient availability |
| Organism |
Saccharomyces cerevisiae |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Other
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| Summary |
Yeast mRNA decapping-activators Pat1 and Dhh1 have been implicated in repressing translation and mRNA degardation in glucose-deprived cells, but the specific mRNAs targeted by each factor and their functions in nutrient replete cells are poorly understood. To test this, we performed ribosome profiling and RNA-Seq in WT, pat1D and pat1Ddhh1D. Further, CAGE-Seq and Rpb1-ChIP Seq were employed to determine their role in decapping mediated degradation of mRNAs
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| Overall design |
This study includes total 26 samples, 9 for ribosome profiling from triplicates of WT, pat1D and pat1Ddhh1D; 3 from triplicates of WT. Separately, the same total RNA dhh1D, and pat1D in duplicates, were subjected to CAGE-Seq (4 samples) and total RNA-Seq (4 samples). pat1D and dhh1D in triplicates were subjected to Rpb1-ChIP seq (6 samples). All strains were grown in YPD at 30ºC till the OD600 ~0.6
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| Contributor(s) |
Kumar Vijjamarri A, Gupta N, Onu C, Niu X, Zhang F, Kumar R, Lin Z, Greenberg ML, Hinnebusch AG |
| Citation(s) |
37439347 |
| |
| Submission date |
Feb 07, 2023 |
| Last update date |
Sep 28, 2023 |
| Contact name |
Alan G Hinnebusch |
| E-mail(s) |
[email protected]
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| Organization name |
National Institutes of Health
|
| Department |
Eunice Kennedy Shriver National Institute of Child Health and Human Development
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| Lab |
Section on Nutrient Control of Gene Expression
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| Street address |
6 Center Drive
|
| City |
Bethesda |
| State/province |
Maryland |
| ZIP/Postal code |
20892 |
| Country |
USA |
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| Platforms (3) |
| GPL17342 |
Illumina HiSeq 2500 (Saccharomyces cerevisiae) |
| GPL19756 |
Illumina NextSeq 500 (Saccharomyces cerevisiae) |
| GPL27812 |
Illumina NovaSeq 6000 (Saccharomyces cerevisiae) |
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| Samples (26)
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| Relations |
| BioProject |
PRJNA932446 |
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