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Series GSE94129 Query DataSets for GSE94129
Status Public on Apr 12, 2017
Title Accumulation of RNA on chromatin disrupts heterochromatic silencing
Organism Schizosaccharomyces pombe
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
Summary Long non-coding RNAs (lncRNAs) play a conserved role in regulating gene expression, chromatin dynamics and cell differentiation. They serve as a platform for RNA interference (RNAi)-mediated heterochromatin formation or DNA methylation in many eukaryotic organisms. We found in Schizosaccharomyces pombe, that heterochromatin is lost at transcribed regions in absence of RNA degradation, although establishment is not affected. We show that heterochromatic RNAs accumulate on chromatin, form R-loops and need to be degraded by the Ccr4-Not complex or RNAi to maintain heterochromatic silencing. The Ccr4-Not complex is localized to chromatin independently of H3K9me and degrades chromatin associated transcripts, which is required for transcriptional silencing. Overexpression of heterochromatic lncRNA at a heterochromatic locus abolishes silencing of an ade6 reporter in wild type cells. Furthermore, euchromatic lncRNA accumulate on chromatin and this regulates their transcription. Our results demonstrate that chromatin bound RNA interfere with heterochromatin organization and silencing.
Overall design RNA, siRNA, ChIP and RIP sequencing in wild type cells and different mutants of S.pombe
Contributor(s) Brönner C, Salvi L, Ugolini I, Halic M
Citation(s) 28404620
Submission date Jan 27, 2017
Last update date May 15, 2019
Contact name Mario Halic
Organization name Ludwig-Maximilians-Universität
Department Biochemistry - Gene Center
Lab Halic
Street address Feodor-Lynen-Str.25
City Munich
ZIP/Postal code 81377
Country Germany
Platforms (2)
GPL9453 Illumina Genome Analyzer II (Schizosaccharomyces pombe)
GPL22681 Illumina HiSeq 1500 (Schizosaccharomyces pombe)
Samples (70)
GSM2470556 RNA_wild_type
GSM2470557 RNA_caf1Δdcr1Δ
GSM2470558 RNA_clr4Δ
BioProject PRJNA369032
SRA SRP098043

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Supplementary file Size Download File type/resource
GSE94129_RAW.tar 2.6 Gb (http)(custom) TAR (of TDF)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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