NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE38090 Query DataSets for GSE38090
Status Public on Jul 01, 2012
Title Shutdown is a component of the Drosophila piRNA biogenesis machinery (RNA-seq)
Organism Drosophila melanogaster
Experiment type Expression profiling by high throughput sequencing
Summary In animals, the piRNA pathway preserves the integrity of gametic genomes, guarding them against the activity of mobile genetic elements. This innate immune mechanism relies on distinct genomic loci, termed piRNA clusters, to provide a molecular definition of transposons, enabling their discrimination from genes. piRNA clusters give rise to long, single-stranded precursors which are processed into primary piRNAs through an unknown mechanism. These can engage in an adaptive amplification loop, the ping-pong cycle, to optimize the content of small RNA populations via the generation of secondary piRNAs. Many proteins have been ascribed functions in either primary biogenesis or the ping-pong cycle, though for the most part the molecular functions of proteins implicated in these pathways remain obscure. Here, we link shutdown, a gene previously shown to be required for fertility in Drosophila, to the piRNA pathway. Analysis of knockdown phenotypes in both the germline and somatic compartments of the ovary demonstrate important roles for shutdown in both primary biogenesis and the ping-pong cycle. shutdown is a member of the FKBP family of immunophilins. Shu contains domains implicated in peptidyl-prolyl cis-trans isomerase activity and in the binding of HSP90-family chaperones, though the relevance of these domains to piRNA biogenesis is unknown.
 
Overall design Analysis of mRNA expression in Drosophila OSS cells transfected with GFP dsRNA. One sample and replicate, used to establish the OSS baseline transcriptome in the presence of exogenous RNAi activity.
 
Contributor(s) Preall JB, Czech B, Guzzardo PM, Muerdter F, Hannon GJ
Citation(s) 22753781
Submission date May 21, 2012
Last update date May 15, 2019
Contact name Benjamin Czech
E-mail(s) czech@cshl.edu
Organization name Cold Spring Harbor Laboratory
Lab Hannon
Street address 1 Bungtown Rd
City Cold Spring Harbor
State/province NY
ZIP/Postal code 11724
Country USA
 
Platforms (1)
GPL9061 Illumina Genome Analyzer II (Drosophila melanogaster)
Samples (1)
GSM934468 OSS_GFP_knockdown
This SubSeries is part of SuperSeries:
GSE38098 Shutdown is a component of the Drosophila piRNA biogenesis machinery
Relations
BioProject PRJNA167214
SRA SRP013290

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
GSE38090_RAW.tar 400.0 Kb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap
External link. Please review our privacy policy.