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Series GSE55824 Query DataSets for GSE55824
Status Public on Jun 08, 2014
Title The Rhino-Deadlock-Cutoff complex licenses non-canonical transcription of dual-strand piRNA clusters in Drosophila
Organism Drosophila melanogaster
Experiment type Non-coding RNA profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary Argonaute proteins of the PIWI clade are central to transposon silencing in animal gonads. Their target specificity is defined by 22-30nt PIWI interacting RNAs (piRNAs), which mostly originate from discrete genomic loci termed piRNA clusters. Here we show that the RDC complex composed of Rhino, Deadlock and Cutoff defines dual-strand piRNA clusters genome-wide in Drosophila ovaries. The RDC complex is anchored to H3K9me3-marked chromatin in part via Rhino’s chromo-domain. Depletion of Piwi results in loss of the RDC and small RNAs at euchromatic piRNA source loci, demonstrating a feedback loop between Piwi and genomic piRNA sources. Intriguingly, profiles of RNA Polymerase II occupancy, nascent transcription and steady-state RNA levels reveal that the RDC licenses non-canonical transcription of dual-stranded piRNA clusters. Likely, this process involves 5’end protection of nascent RNAs and subsequent suppression of transcription termination. Together, our data provide a comprehensive model for the regulation and evolution of piRNA clusters.
 
Overall design This study aims at indentifying and characterizing genimc sources of piRNA percursour transcripts using genome-wide apporaches such as ChIP-seq, RNA-seq, smallRNA-seq and GRO-seq in adult Drosophila ovaries depleted for several factors implicated in piRNA cluster regulation
 
Contributor(s) Mohn F, Sienski G, Handler D, Brennecke J
Citation(s) 24906153
Submission date Mar 12, 2014
Last update date May 15, 2019
Contact name Fabio Mohn
E-mail(s) fabio.mohn@fmi.ch
Organization name Friedrich Miescher Institute for Biomedical Research
Lab Buehler Lab
Street address Maulbeerstrasse 66
City Basel
ZIP/Postal code 4058
Country Switzerland
 
Platforms (1)
GPL13304 Illumina HiSeq 2000 (Drosophila melanogaster)
Samples (36)
GSM1346530 small RNAs (18-29nt) from control germline knock-down ovaries
GSM1346531 small RNAs (18-29nt) from rhino germline knock-down ovaries
GSM1346532 small RNAs (18-29nt) from cutoff germline knock-down ovaries
Relations
BioProject PRJNA241078
SRA SRP040008

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Supplementary file Size Download File type/resource
GSE55824_processed_data_1kb_bins.txt.gz 14.1 Mb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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