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| Status |
Public on Nov 03, 2016 |
| Title |
Yeast Hsp90-dependent chromatin changes as monitored using DNase-Seq |
| Organism |
Saccharomyces cerevisiae |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
We report the application of DNase-Seq (adapted from Hesselberth et al., 2009, as described in Zelin et al., 2012) to study the chromatin changes upon short Hsp90 depletion by exploiting temperature-sensitive allele G170D (Nathan and Lindquist, 1995). By generating ~43.6 million reads for wild type and 68.6 million reads for mutant, we were able to reconstitute the hypersensitivity maps under the regular conditions and under the conditions where Hsp90 was heat-inactivated. We find that there is a global reduction of open chromatin upon Hsp90 inactivation, as displayed by the decrease of total DHS size and the DHSs numbers. We also find that loss of Hsp90 leads to the increase of open chromatin at certain locations associated with chromatin remodelers such as RSC. Overall this study shows that short term improper functioning of Hsp90 results in genome-wide chromatin perturbations thereby demonstrating an Hsp90-dependence of chromatin architecture.
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| Overall design |
DNase-Seq in WT and the Hsp90 temperature-sensitive strain with allele G170D at a non-permissive temperature
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| Contributor(s) |
Gvozdenov Z, Zhang Y, Freeman BC |
| Citation missing |
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| Submission date |
Oct 18, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Brian Christopher Freeman |
| E-mail(s) |
bfree@illinois.edu
|
| Phone |
(217) 244-2662
|
| Organization name |
University of Illinois at Urbana-Champaign
|
| Department |
Department of Cell and Developmental Biology
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| Lab |
Freeman Lab
|
| Street address |
601 South Goodwin Avenue
|
| City |
Urbana |
| State/province |
Illinois |
| ZIP/Postal code |
61801 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL13821 |
Illumina HiSeq 2000 (Saccharomyces cerevisiae) |
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| Samples (2) |
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| This SubSeries is part of SuperSeries: |
| GSE88877 |
chromatin changes upon short Hsp90 depletion and Sba1 ChIP-Seq |
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| Relations |
| BioProject |
PRJNA349014 |
| SRA |
SRP091711 |
