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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Jun 30, 2006 |
| Title |
A small RNA mechanism distinct from the RNAi and microRNA pathways silences selfish genetic elements in Drosophila. |
| Organism |
Drosophila melanogaster |
| Experiment type |
Non-coding RNA profiling by array
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| Summary |
In flies, repeat-associated small interfering RNAs (rasiRNAs) ensure genomic stability by silencing endogenous selfish genetic elements such as retrotransposons and repetitive sequences. Here, we show that while small interfering RNAs (siRNAs) derive from both the sense and antisense strands of their double-stranded RNA precursors, rasiRNAs arise mainly from the antisense strand. rasiRNA production appear not to require Dicer-1, which makes microRNAs, or Dicer-2, which makes siRNAs, and rasiRNAs lack the 2´,3´ hydroxy termini characteristic of animal siRNA and miRNA. Unlike siRNAs and miRNAs, rasiRNAs function through the Piwi, rather than the Ago, Argonaute protein subfamily. Thus, rasiRNAs define a third RNA silencing pathway distinct from both the miRNA and RNAi pathways.
Keywords: gene silencing; post-transcriptional gene regulation; short RNAs; RNAi; rasiRNAs; rasiRNA; microRNAs; microRNA; siRNAs; siRNA
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| Overall design |
Short RNAs homologous to several selfish genetic elements (including Su(Ste) and roo), as well as a transgenic inverse-repeat made of white exon 3, were detected using custom-made tiling microarrays. These arrays also detect microRNAs. We used them to quantify rasiRNAs and siRNAs in various genetic backgrounds.
Su(Ste) rasiRNAs were quantified in crystal mutants vs. wt (two arrays, with color-reversal; wt samples for both arrays were prepared independently, as well as cry samples); in armitage mutants vs. wt (two arrays, with color-reversal; the same
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| Contributor(s) |
Vagin VV, Sigova A, Li C, Seitz H, Gvozdev V, Zamore PD |
| Citation(s) |
16809489 |
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| Submission date |
May 25, 2006 |
| Last update date |
Mar 16, 2012 |
| Contact name |
Hervé Seitz |
| Phone |
(508)856 1220
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| 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
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| City |
Worcester |
| State/province |
MA |
| ZIP/Postal code |
01605-2324 |
| Country |
USA |
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| Platforms (10)
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| GPL3773 |
Su(Ste) tiling and microRNA array (#1) |
| GPL3803 |
Su(Ste) tiling and microRNA array (#2) |
| GPL3804 |
Su(Ste) tiling and microRNA array (#3) |
| GPL3805 |
Su(Ste) tiling and microRNA array (#4) |
| GPL3806 |
Su(Ste) tiling and microRNA array (#5) |
| GPL3807 |
Su(Ste) tiling and microRNA array (#6) |
| GPL3813 |
Su(Ste) tiling and microRNA array (#7) |
| GPL3814 |
White tiling and microRNA array |
| GPL3815 |
roo tiling and microRNA array |
| GPL3822 |
roo tiling and microRNA array (#2) |
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| Samples (10)
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| GSM110588 |
Su(Ste) tiling, wt (Cy3) vs. cry (Cy5) |
| GSM110589 |
Su(Ste) tiling, cry (Cy3) vs. wt (Cy5) |
| GSM111128 |
Su(Ste) tiling, wt (Cy3) vs. armi (Cy5) |
| GSM111136 |
Su(Ste) tiling, armi (Cy3) vs. wt (Cy5) |
| GSM111143 |
Su(Ste) tiling, wt (Cy3) vs. spn-E (Cy5) |
| GSM111150 |
Su(Ste) tiling, wt (Cy3) vs. piwi (Cy5) |
| GSM111152 |
Su(Ste) tiling, wt (Cy3) vs. aub (Cy5) |
| GSM111153 |
White tiling, wt (Cy3) vs. dcr-2 (Cy5) |
| GSM111154 |
roo tiling, armi heterozygotes (Cy3) vs. armi homozygotes (Cy5) |
| GSM111272 |
roo tiling, wt (Cy3) vs. wt (Cy5) |
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| Relations |
| BioProject |
PRJNA95883 |
| Supplementary data files not provided |
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