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Series GSE41207 Query DataSets for GSE41207
Status Public on Nov 07, 2013
Title A retrotransposon-driven Dicer variant enhances endogenous RNAi in mouse oocytes
Organism Mus musculus
Experiment type Non-coding RNA profiling by high throughput sequencing
Summary Mammals have one Dicer gene required for biogenesis of small RNAs in microRNA (miRNA) and RNA interference (RNAi) pathways. Yet, endogenous RNAi is highly active in oocytes but not in somatic cells. Here, we provide a mechanistical explanation for high RNAi activity in mouse oocytes. The main Dicer isoform in oocytes is transcribed from an intronic MT-C retrotransposon, which functions as a promoter of an oocyte-specific Dicer isoform (denoted DicerO). DicerO lacks an N-terminal helicase domain and has a higher cleavage activity than the full-length Dicer from somatic cells. DicerO can rescue the miRNA pathway and, in addition, it efficiently produces small RNAs from long dsRNA substrates. Thus, control of endogenous RNAi activity in mice occurs via alternative Dicer isoform and the phylogenetic origin of DicerO demonstrates evolutionary plasticity of RNA silencing pathways.
Overall design NIH3T3 cells or mouse embryonic stem cells expressing oocyte-specific or somatic form of Dicer were transiently transfected with a plasmid expressing long double-stranded RNA (within the 3'-UTR of EGFP reporter) or left without transfection for controls.
Contributor(s) Flemr M, Malik R, Franke V, Nejepinska J, Vlahovicek K, Svoboda P
Citation(s) 24209619
Submission date Sep 27, 2012
Last update date May 15, 2019
Contact name Radek Malik
Organization name Institute of Molecular Genetics of the ASCR
Department Dep. of Epigenetics Regulations
Street address Videnska 1083
City Prague 4
ZIP/Postal code CZ-14220
Country Czech Republic
Platforms (1)
GPL14602 AB SOLiD 4 System (Mus musculus)
Samples (19)
GSM1010522 Dicer flox/- (mESCs)
GSM1010523 Dicer -/- (mESCs); this cell line was used for all transfection experiments
GSM1010524 Dgcr8 -/- (mESCs)
BioProject PRJNA176163
SRA SRP015920

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Supplementary file Size Download File type/resource
GSE41207_RAW.tar 3.4 Gb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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