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| Status |
Public on Nov 21, 2023 |
| Title |
Genome-wide ChIP-exo profiling of Fpt1 in glucose |
| Organism |
Saccharomyces cerevisiae |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Transcription of transfer-RNA genes (tDNAs) by RNA Polymerase III (RNAPIII) is tightly regulated upon nutrient and stress signaling. However, identical tDNAs across the genome are differentially regulated, suggesting regulation at the chromatin-level plays a crucial role. This study aimed to identify such mechanisms by decoding the chromatin proteome of a native tDNA locus in yeast using Epi-Decoder. The tDNA proteome showed dynamic binding of both known and unknown factors upon nutrient stress, including Ykr011c (Fpt1), a protein of unknown function. Decoding the tDNA proteome in the absence of Fpt1 revealed a role in the eviction of RNAPIII during repressed transcription. Fpt1 exclusively occupied RNAPIII-regulated genes, but cells without Fpt1 also showed impaired shutdown of RNAPII-transcribed ribosome biogenesis genes in changing nutrient conditions. These findings provide support for a novel chromatin-associated regulator required for proper RNAPIII assembly that also tunes an integrated physiological response to changing metabolic conditions.
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| Overall design |
Genome-wide ChIP-exo binding profiles of Fpt1 were determined using high throughput paired-end sequencing using ChIP-exo 5.0.
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| Contributor(s) |
Mittal C, van Breugel ME, Pugh F, van Leeuwen F |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Mar 30, 2023 |
| Last update date |
Nov 21, 2023 |
| Contact name |
Fred van Leeuwen |
| E-mail(s) |
fred.v.leeuwen@nki.nl
|
| Organization name |
Netherlands Cancer Institute
|
| Department |
Gene Regulation
|
| Street address |
Plesmanlaan 121
|
| City |
Amsterdam |
| ZIP/Postal code |
1066CX |
| Country |
Netherlands |
| |
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| Platforms (1) |
| GPL19756 |
Illumina NextSeq 500 (Saccharomyces cerevisiae) |
|
| Samples (4)
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| GSM7124017 |
Fpt1-TAP ChIP-exo 5.0 NKI5623 Replicate 1 |
| GSM7124018 |
Fpt1-TAP ChIP-exo 5.0 NKI5623 Replicate 2 |
| GSM7124019 |
Fpt1-TAP ChIP-exo 5.0 NKI5632-1 Replicate 1 |
| GSM7124020 |
Fpt1-TAP ChIP-exo 5.0 NKI5632-1 Replicate 2 |
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| This SubSeries is part of SuperSeries: |
| GSE227470 |
A regulator of RNA Polymerase III at tRNA genes revealed by locus-specific proteome decoding |
|
| Relations |
| BioProject |
PRJNA950350 |
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