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Series GSE10277 Query DataSets for GSE10277
Status Public on May 08, 2008
Title Drosophila endogenous small RNAs bind to Argonaute2 in somatic cells
Organism Drosophila melanogaster
Experiment type Expression profiling by array
Summary RNA silencing is a conserved mechanism in which small RNAs trigger various forms of sequence specific gene silencing by guiding Argonaute complexes to target RNAs via base-pairing. RNA silencing is thought to have evolved as a form of nucleic-acid-based immunity to inactivate viruses and transposable elements (TEs). Although the activity of TEs in animals has been thought to be largely restricted to the germline, recent studies have shown that they may also actively transpose in somatic cells, creating somatic mosaicism in animals3. In the Drosophila germline, piRNAs arise from repetitive intergenic elements including retrotransposons by a Dicer-independent pathway and function through the PIWI subfamily of Argonautes to ensure silencing of retrotransposons. Here we show that in Drosophila cultured S2 cells, Argonaute2 (AGO2), an AGO subfamily member of Argonautes, associates with endogenous small RNAs of 20-22 nucleotides in length, which we have collectively named esiRNAs (endogenous siRNAs). esiRNAs can be divided into two groups: one that mainly corresponds to a subset of retrotransposons, and the other that arises from stem-loop structures. esiRNAs are produced in a Dicer-2-dependent manner from distinctive genomic loci, are modified at their 3’ ends and can direct AGO2 to cleave target RNAs. Depletion of Dicer2 or AGO2 in S2 cells coincided with higher levels of retrotransposon transcripts. Together, our findings indicate that in Drosophila, different types of small RNAs and Argonautes are utilized to repress retrotransposons in germline and somatic cells.
Keywords: AGO2, small RNA 454 sequencing - high throughput
 
Overall design Cloning of small RNAs associated with AGO2 in S2 cells and deep sequence analysis. Presented here is a list of non-redundant AGO2-associated small RNAs.
 
Contributor(s) Kawamura Y, Saito K, Kin T, Asai K, Sunohara T, Okada TN, Siomi MC, Siomi H
Citation(s) 18463636
Submission date Jan 25, 2008
Last update date Mar 19, 2012
Contact name Toutai MITUYAMA
Organization name National Institute of Advanced Industrial Science and Technology (AIST)
Department Artificial Intelligence Research Team
Lab Computational Omics Research Team
Street address 2-4-7 Aomi
City Koto-ku
State/province Tokyo
ZIP/Postal code 135-0064
Country Japan
 
Platforms (1)
GPL6452 Siomi Lab fruit fly S2 AGO2 Annotation Results v1.0 (454 sequencing).
Samples (1)
GSM266765 Siomi Lab fruit fly S2 AGO2 Cloned Sequences v1.0
Relations
BioProject PRJNA108475

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
GSE10277_RAW.tar 1.0 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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