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Series GSE69102 Query DataSets for GSE69102
Status Public on Jul 09, 2015
Title RNA elements in precursors instruct directional and processive primary piRNA biogenesis
Organisms Bombyx mori; Drosophila melanogaster; Mus musculus
Experiment type Expression profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
Summary PIWI-interacting RNAs (piRNAs) are animal gonad-specific small RNAs that control the activity of transposable elements. Long single stranded RNAs from a variety of sources are substrates for the nebulous primary processing pathway that converts these into thousands of 24-30 nucleotide (nt) piRNAs. How these transcripts are selected as precursors is not known. Here we show that targeting a transcript with PIWI slicer activity of cysosolic Ago3 is sufficient to trigger ~30-nt waves of non-overlapping primary piRNAs in the fly ovarian germline. The generated primary piRNAs are almost exclusively loaded into the nuclear PIWI protein, Piwi. In the fly ovarian somatic environment we find that an RNA fragment from the 5′ end of a piRNA cluster is able to direct a heterologous sequence into primary processing. This piRNA trigger sequence (PTS) element drives generation of overlapping piRNAs from the transcript. Both mechanisms proceed with general 5′-3′ directionality. We propose that the former pathway serves to link cytoplasmic silencing of a target to nuclear transcriptional repression, while the latter extracts silencing information from a wide variety of genomic sources including piRNA clusters, select protein coding and transposon transcripts.
 
Overall design Total or immunoprecipitated small RNAs were purified from transfected BmN4 cells, Drosophila ovarian somatic cells (OSC) and from fly ovaries and high-throughput sequencing libraries were prepared. The mouse testicular RNAs were purified after ribozero treatment.
 
Contributor(s) Homolka D, Pandey RR, Goriaux C, Brasset E, Vaury C, Fauvarque-Marras M, Pillai RS
Citation(s) 26166577
Submission date May 21, 2015
Last update date May 15, 2019
Contact name Ramesh Pillai
E-mail(s) [email protected]
Organization name University of Geneva
Department Department of Molecular Biology
Street address 30, Quai Ernest-Ansermet
City Gneveva
ZIP/Postal code CH-1211
Country Switzerland
 
Platforms (3)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
GPL13304 Illumina HiSeq 2000 (Drosophila melanogaster)
GPL16216 Illumina HiSeq 2000 (Bombyx mori)
Samples (53)
GSM1692875 pi-Chr17-ΔMyb (+/-), Mili IP [RR171]
GSM1692876 pi-Chr17-ΔMyb (-/-), Mili IP [RR172]
GSM1692877 pi-Chr17-ΔMyb (-/-), Mili IP [RR173]
Relations
BioProject PRJNA284571
SRA SRP058562

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
GSE69102_RAW.tar 34.9 Mb (http)(custom) TAR (of TXT)
GSE69102_RR171-RR176_mappers.csv.gz 460.1 Mb (ftp)(http) CSV
GSE69102_RR181_RR190_mappers.csv.gz 1.2 Gb (ftp)(http) CSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record
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