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Series GSE202465 Query DataSets for GSE202465
Status Public on May 15, 2022
Title The Drosophila ZAD zinc finger protein Kipferl guides Rhino to piRNA clusters (ChIP-Seq)
Organism Drosophila melanogaster
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary RNA interference systems depend on the synthesis of small RNA precursors whose sequences define the target spectrum of these silencing pathways. The Drosophila Heterochromatin Protein 1 (HP1) variant Rhino permits transcription of PIWI-interacting RNA (piRNA) precursors within transposon-rich heterochromatic loci in germline cells. Current models propose that Rhino’s specific chromatin occupancy at piRNA source loci is determined by histone marks and maternally inherited piRNAs, but also imply the existence of other, undiscovered specificity cues.
Here, we identify a member of the diverse family of zinc finger associated domain (ZAD)-C2H2 proteins, Kipferl, as critical Rhino cofactor in ovaries. By binding to guanosine-rich DNA motifs and interacting with the Rhino chromodomain, Kipferl recruits Rhino to specific loci and stabilizes it on chromatin. In kipferl mutant flies, Rhino is lost from most of its target chromatin loci and instead accumulates on pericentromeric satellite arrays, resulting in decreased levels of transposon targeting piRNAs and impaired fertility. Our findings reveal that DNA sequence, in addition to the H3K9me3 mark, determines the identity of piRNA source loci and provide insight into how Rhino might be caught in the crossfire of genetic conflicts.
 
Overall design Comparative gene expression profiling analysis of RNA-seq data for MTD-Gal4 knock-downs of control, rhino and CG2678.
 
Contributor(s) Baumgartner L, Handler D, Duchek P, Platzer S, Yu C, Brennecke J
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Submission date May 08, 2022
Last update date Aug 11, 2022
Contact name Lisa Baumgartner
E-mail(s) lisa.baumgartner@imba.oeaw.ac.at
Organization name IMBA
Lab Brennecke Lab
Street address Dr. Bohr-Gasse 3
City Vienna
ZIP/Postal code 1030
Country Austria
 
Platforms (4)
GPL21306 Illumina HiSeq 4000 (Drosophila melanogaster)
GPL22106 NextSeq 550 (Drosophila melanogaster)
GPL25244 Illumina NovaSeq 6000 (Drosophila melanogaster)
Samples (111)
GSM6122826 MTD-Gal4 driven control KD Rhi-ChIP biological replicate 1
GSM6122827 MTD-Gal4 driven control KD Rhi-ChIP biological replicate 2
GSM6122828 MTD-Gal4 driven control KD Rhi-ChIP biological replicate 3
This SubSeries is part of SuperSeries:
GSE202468 The Drosophila ZAD zinc finger protein Kipferl guides Rhino to piRNA clusters
Relations
BioProject PRJNA836257

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE202465_RAW.tar 11.0 Gb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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