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Series GSE41729 Query DataSets for GSE41729
Status Public on Nov 26, 2012
Title Transcriptional silencing of transposable elements by Piwi and its impact on chromatin and gene expression
Organism Drosophila melanogaster
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Genome variation profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
Summary Eukaryotic genomes are colonized by transposable elements whose uncontrolled activity results in genomic instability. The piRNA pathway silences transposons in animal gonads, yet how this is achieved molecularly remains controversial. We assign an essential role to the HMG protein Maelstrom in the process of Piwi mediated silencing in Drosophila. Genome wide assays revealed highly correlated changes in RNA Polymerase II recruitment, nascent RNA output and steady state RNA levels of transposons upon loss of Piwi or Maelstrom. Our data demonstrate piRNA-mediated trans- silencing of hundreds of transposon copies at the transcriptional level. We show that Piwi is required for establishing heterochromatic H3K9me3 marks on transposons and their genomic surrounding. In contrast, loss of Maelstrom impacts transposon H3K9me3 patterns only marginally yet leads to increased heterochromatin spreading, suggesting that Maelstrom acts downstream of or in parallel to H3K9me3. Our work uncovers the widespread influence of transposons and the piRNA pathway on chromatin patterns and gene expression programs.
Overall design RNA Polymerase II and H3K9me3 occupancy, and steady-state and nascent RNA levels in wild-type ovarian somatic cells (OSC) and RNAi knock-downs of the piRNA pathway components.
RNA Polymerase II occupancy in tissue-specific knockdowns of tejas (control) and armi in somatic cells of Drosophila ovary.
Contributor(s) Sienski G, Brennecke J
Citation(s) 23159368
Submission date Oct 19, 2012
Last update date May 15, 2019
Contact name Grzegorz Sienski
Organization name IMBA-Institute of Molecular Biotechnology of Austrian Academy of Sciences
Street address Dr. Bohr-Gasse 3
City Vienna
ZIP/Postal code 1030
Country Austria
Platforms (2)
GPL11203 Illumina Genome Analyzer IIx (Drosophila melanogaster)
GPL13304 Illumina HiSeq 2000 (Drosophila melanogaster)
Samples (32)
GSM1027402 DNA-seq from OSC
GSM1027403 total nascent RNA from wild-type ovarian somatic cells
GSM1027404 total nascent RNA from Piwi-KD ovarian somatic cells
BioProject PRJNA178497
SRA SRP016875

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Supplementary file Size Download File type/resource 260.6 Mb (ftp)(http) BW 304.6 Mb (ftp)(http) BW 335.0 Mb (ftp)(http) BW
GSE41729_RAW.tar 219.4 Mb (http)(custom) TAR (of BED, BW) 335.2 Mb (ftp)(http) BW 295.9 Mb (ftp)(http) BW 328.9 Mb (ftp)(http) BW
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Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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