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| Status |
Public on Apr 11, 2008 |
| Title |
Endogenous siRNAs derived from transposons and mRNAs in Drosophila somatic cells |
| Organism |
Drosophila melanogaster |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
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| Summary |
Small interfering RNAs (siRNAs) direct RNA interference (RNAi) in eukaryotes. In flies, somatic cells produce siRNAs from exogenous double-stranded RNA as a defense against viral infection. Here, we identify 21-nt long, endogenous siRNAs (endo-siRNAs) corresponding to transposons and heterochromatic sequences in the somatic cells of Drosophila melanogaster. We also detected endo-siRNAs complementary to mRNAs: these siRNAs disproportionately mapped to the complementary regions of overlapping mRNAs predicted to form dsRNA in vivo. Normal accumulation of somatic endo-siRNAs requires the siRNA-generating ribonuclease, Dicer-2, and the RNAi effector protein, Ago2. We propose that endo-siRNAs generated by the fly RNAi pathway silence selfish genetic elements in the soma much as piRNAs do in the germ line.
Keywords: Small RNA detection and quantification.
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| Overall design |
Small RNAs (18-30 nt) from fly heads (WT, ago2 mutants, dcr-2 homozygous and heterozygous mutants, and WT expressing an inverted repeat directed against exon 3 of the gene "white") and S2 cells (transgenic for a construct expressing siRNAs against white and GFP) were sequenced using a Solexa Genome Analyzer instrument.
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| Contributor(s) |
Ghildiyal M, Seitz H, Horwich MD, Li C, Du T, Lee S, Xu J, Kittler EL, Zapp ML, Weng Z, Zamore PD |
| Citation(s) |
18403677 |
| |
| Submission date |
Apr 01, 2008 |
| Last update date |
May 15, 2019 |
| Contact name |
Hervé Seitz |
| Phone |
(508)856 1220
|
| Fax |
(508)856 2003
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| URL |
http://www.umassmed.edu/bmp/faculty/zamore.cfm?start=0&
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| Organization name |
University of Massachusetts Medical School
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| Department |
Biochemistry and Molecular Pharmacology
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| Lab |
870 P, Lazare Research Building
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| Street address |
364 Plantation Street
|
| City |
Worcester |
| State/province |
MA |
| ZIP/Postal code |
01605-2324 |
| Country |
USA |
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| Platforms (1) |
| GPL6664 |
Drosophila melanogaster deep-sequencing small RNAs |
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| Samples (14)
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| Relations |
| SRA |
SRP000181 |
| BioProject |
PRJNA107113 |
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