 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Dec 05, 2016 |
| Title |
Survival in quiescence requires the euchromatic deployment of Clr4/SUV39H by Argonaute-associated small RNAs [ChIP-Seq] |
| Organism |
Schizosaccharomyces pombe |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Cellular quiescence (G0) is a ubiquitous stress response through which cells enter a state of reversible dormancy, acquiring distinct properties including reduced metabolism, resistance to stress and long life. G0 entry involves dramatic changes to the chromatin landscape and transcriptional program of cells, but the mechanisms coordinating these processes remain poorly understood. Using the fission yeast, here we track the G0-associated chromatin and transcriptional changes temporally. We show that as cells enter G0, their survival and global gene expression programs become increasingly dependent on Clr4/SUV39H, the sole histone H3 lysine 9 (H3K9) methyltransferase, and RNA interference (RNAi) proteins. Notably, G0 entry results in RNAi-dependent H3K9 methylation of several euchromatic regions, prior to which Argonaute 1-associated small RNAs from these regions emerge. Overall our data reveal a new function for constitutive heterochromatin proteins in establishing the global G0 transcriptional program and suggest that stress-induced alterations in Argonaute-associated sRNAs can specify the deployment of transcriptional regulatory proteins to unique sites in eukaryotic genomes.
|
| |
|
| Overall design |
Comparision of H3K9me2 peaks in wt/clr4D/ago1D
|
| |
|
| Contributor(s) |
Joh RI, Khanduja JS, Calvo IA, Mistry M, Palmieri CM, Savol AJ, Sui SJ, Sadreyev RI, Aryee MJ, Motamedi M |
| Citation(s) |
27984744 |
| Submission date |
Oct 25, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Richard Joh |
| E-mail(s) |
rich.i.joh@gmail.com
|
| Organization name |
Mass General Hospital
|
| Department |
Center for Cancer Research
|
| Street address |
149 13th St
|
| City |
Charlestown |
| State/province |
MA |
| ZIP/Postal code |
02129 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL20584 |
Illumina NextSeq 500 (Schizosaccharomyces pombe) |
|
| Samples (56)
|
| GSM2359562 |
wt 0h, H3K9me2, rep2 (ChIP-Seq) |
| GSM2359563 |
wt 1h, H3K9me2, rep2 (ChIP-Seq) |
| GSM2359564 |
wt 24h, H3K9me2, rep2 (ChIP-Seq) |
| GSM2359565 |
wt 0h, H3K9me2, rep3 (ChIP-Seq) |
| GSM2359566 |
wt 24h, H3K9me2, rep3 (ChIP-Seq) |
| GSM2359567 |
wt 0h, H3K9me2, rep4 (ChIP-Seq) |
| GSM2359568 |
wt 24h, H3K9me2, rep4 (ChIP-Seq) |
| GSM2359569 |
wt 0h, H3K9me2, rep5 (ChIP-Seq) |
| GSM2359570 |
wt 24h, H3K9me2, rep5 (ChIP-Seq) |
| GSM2359571 |
wt 0h, H3K9me2, rep6 (ChIP-Seq) |
| GSM2359572 |
wt 24h, H3K9me2, rep6 (ChIP-Seq) |
| GSM2359573 |
clr4D 0h, H3K9me2, rep1 (ChIP-Seq) |
| GSM2359574 |
clr4D 1h, H3K9me2, rep1 (ChIP-Seq) |
| GSM2359575 |
clr4D 24h, H3K9me2, rep1 (ChIP-Seq) |
| GSM2359576 |
clr4D 0h, H3K9me2, rep2 (ChIP-Seq) |
| GSM2359577 |
clr4D 1h, H3K9me2, rep2 (ChIP-Seq) |
| GSM2359578 |
clr4D 24h, H3K9me2, rep2 (ChIP-Seq) |
| GSM2359579 |
ago1D 0h, H3K9me2, rep1 (ChIP-Seq) |
| GSM2359580 |
ago1D 24h, H3K9me2, rep1 (ChIP-Seq) |
| GSM2359581 |
ago1D 0h, H3K9me2, rep2 (ChIP-Seq) |
| GSM2359582 |
ago1D 24h, H3K9me2, rep2 (ChIP-Seq) |
| GSM2359583 |
wt 0h, H3K9me3, rep1 (ChIP-Seq) |
| GSM2359584 |
wt 1h, H3K9me3, rep1 (ChIP-Seq) |
| GSM2359585 |
wt 24h, H3K9me3, rep1 (ChIP-Seq) |
| GSM2359586 |
clr4D 0h, H3K9me3, rep1 (ChIP-Seq) |
| GSM2359587 |
clr4D 1h, H3K9me3, rep1 (ChIP-Seq) |
| GSM2359588 |
clr4D 24h, H3K9me3, rep1 (ChIP-Seq) |
| GSM2359589 |
wt 0h, input for sample 1, rep1 (ChIP-Seq) |
| GSM2359590 |
wt 1h, input for sample 2, rep1 (ChIP-Seq) |
| GSM2359591 |
wt 24h, input for sample 3, rep1 (ChIP-Seq) |
| GSM2359592 |
wt 0h, input for sample 4, rep2 (ChIP-Seq) |
| GSM2359593 |
wt 1h, input for sample 5, rep2 (ChIP-Seq) |
| GSM2359594 |
wt 24h, input for sample 6, rep2 (ChIP-Seq) |
| GSM2359595 |
wt 0h, input for sample 11, rep5 (ChIP-Seq) |
| GSM2359596 |
wt 24h, input for sample 12, rep5 (ChIP-Seq) |
| GSM2359597 |
wt 0h, input for sample 13, rep6 (ChIP-Seq) |
| GSM2359598 |
wt 24h, input for sample 14, rep6 (ChIP-Seq) |
| GSM2359599 |
clr4D 0h, input for sample 15, rep1 (ChIP-Seq) |
| GSM2359600 |
clr4D 1h, input for sample 16, rep1 (ChIP-Seq) |
| GSM2359601 |
clr4D 24h, input for sample 17, rep1 (ChIP-Seq) |
| GSM2359602 |
clr4D 0h, input for sample 18, rep2 (ChIP-Seq) |
| GSM2359603 |
clr4D 1h, input for sample 19, rep2 (ChIP-Seq) |
| GSM2359604 |
clr4D 24h, input for sample 20, rep2 (ChIP-Seq) |
| GSM2359605 |
ago1D 0h, input for sample 21, rep1 (ChIP-Seq) |
| GSM2359606 |
ago1D 24h, input for sample 22, rep1 (ChIP-Seq) |
| GSM2359607 |
ago1D 0h, input for sample 23, rep2 (ChIP-Seq) |
| GSM2359608 |
ago1D 24h, input for sample 24, rep2 (ChIP-Seq) |
| GSM2359609 |
wt 0h, input for sample 25, rep1 (ChIP-Seq) |
| GSM2359610 |
wt 1h, input for sample 26, rep1 (ChIP-Seq) |
| GSM2359611 |
wt 24h, input for sample 27, rep1 (ChIP-Seq) |
| GSM2359612 |
clr4D 0h, input for sample 28, rep1 (ChIP-Seq) |
| GSM2359613 |
clr4D 1h, input for sample 29, rep1 (ChIP-Seq) |
| GSM2359614 |
clr4D 24h, input for sample 30, rep1 (ChIP-Seq) |
|
| This SubSeries is part of SuperSeries: |
| GSE89151 |
Survival in quiescence requires the euchromatic deployment of Clr4/SUV39H by Argonaute-associated small RNAs |
|
| Relations |
| BioProject |
PRJNA350393 |
| SRA |
SRP092036 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE89142_RAW.tar |
1.3 Gb |
(http)(custom) |
TAR (of BEDGRAPH) |
| GSE89142_diffbind_set13456.xlsx |
295.2 Kb |
(ftp)(http) |
XLSX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
|
|
|
|
 |
Less...
More...