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Series GSE53830 Query DataSets for GSE53830
Status Public on Mar 27, 2014
Title The DEAD box helicase RDE-12 promotes amplification of RNAi in cytoplasmic foci in C. elegans
Organism Caenorhabditis elegans
Experiment type Non-coding RNA profiling by high throughput sequencing
Summary RNA interference (RNAi) is a potent mechanism for down-regulating gene expression. Conserved RNAi pathway components are found in animals, plants, fungi and other eukaryotes. In C. elegans, the RNAi response is greatly amplified by the synthesis of abundant secondary siRNAs. Exogenous double stranded RNA is processed by Dicer and RDE-1/Argonaute into primary siRNA that guides target mRNA recognition. The RDE-10/RDE-11 complex and the RNA dependent RNA polymerase RRF-1 then engage the target mRNA for secondary siRNA synthesis. However, the molecular link between primary siRNA production and secondary siRNA synthesis remains largely unknown. Furthermore, it is unclear if the sub-cellular sites for target mRNA recognition and degradation coincide with sites where siRNA synthesis and amplification occur. In the C. elegans germline, cytoplasmic P granules at the nuclear pores and perinuclear Mutator foci contribute to target mRNA surveillance and siRNA amplification, respectively. We report that RDE-12, a conserved FG domain containing DEAD-box helicase, localizes in P-granules and cytoplasmic foci that are enriched in RSD-6 but are excluded from the Mutator foci. Our results suggest that RDE-12 promotes secondary siRNA synthesis by orchestrating the recruitment of RDE-10 and RRF-1 to primary siRNA targeted mRNA in distinct cytoplasmic compartments.
 
Overall design Examination of exogenous dsRNA trigger derived siRNA in wildtype and rde-12 mutant animals
 
Contributor(s) Yang H, Vallandingham J, Mak H
Citation(s) 24684930
Submission date Jan 06, 2014
Last update date May 15, 2019
Contact name Huan Yang
Organization name Stowers Institute for Medical Research
Lab Mak Lab
Street address 1000 East 50th Street
City Kansas City
State/province MO
ZIP/Postal code 64110
Country USA
 
Platforms (1)
GPL13657 Illumina HiSeq 2000 (Caenorhabditis elegans)
Samples (8)
GSM1301733 OP50_N2_1
GSM1301734 OP50_N2_2
GSM1301735 OP50_hj41_1
Relations
BioProject PRJNA233484
SRA SRP034941

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
GSE53830_sel_1_siRNA_expression.txt.gz 239 b (ftp)(http) TXT
GSE53830_small_RNA_expression.txt.gz 23.6 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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