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| Status |
Public on Apr 27, 2020 |
| Title |
A Tudor-domain containing protein, SIMR-1, mediates silencing of piRNA target mRNAs by the Mutator Complex |
| Organism |
Caenorhabditis elegans |
| Experiment type |
Expression profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
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| Summary |
piRNAs play a critical role in the regulation of transposons and other germline genes. In Caenorhabditis elegans, silencing of piRNA target genes is mediated by the Mutator complex, which synthesizes high levels of siRNAs through the activity of an RNA-dependent RNA polymerase. However, how mRNAs recognized by the piRNA pathway are handed off to the Mutator pathway is unclear. Here, we identify the Tudor domain-containing protein, SIMR-1, as a key mediator of this handoff. Interestingly, SIMR-1 also localizes to distinct subcellular foci adjacent to P granules and Mutator foci, two phase-separated condensates that are the sites of piRNA-dependent mRNA recognition and Mutator complex-dependent siRNA amplification, respectively. Thus, our data suggests a role for multiple perinuclear condensates in organizing the piRNA pathway and promoting silencing by the Mutator complex.
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| Overall design |
10 small-RNA seq libraries in duplicate, 14 single replicate small-RNA seq libraries, and 10 mRNA-seq libraries in triplicate were generated and analyzed.
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| Web link |
https://elifesciences.org/articles/56731
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| Contributor(s) |
Phillips C, Manage K, Rogers A, Uebel C, Arca K |
| Citation(s) |
32338603 |
| Submission date |
Sep 30, 2019 |
| Last update date |
Apr 29, 2020 |
| Contact name |
Alicia Kathryn Rogers |
| E-mail(s) |
alicia.rogers@uta.edu
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| Phone |
8172722873
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| Organization name |
University of Texas at Arlington
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| Department |
Department of Biology
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| Street address |
1225 W Mitchell Street
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| City |
Arlington |
| State/province |
Texas |
| ZIP/Postal code |
76019 |
| Country |
USA |
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| Platforms (1) |
| GPL19757 |
Illumina NextSeq 500 (Caenorhabditis elegans) |
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| Samples (64)
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| GSM4102121 |
N2 gen1 rep 2 |
| GSM4102122 |
N2 gen2 rep 1 |
| GSM4102123 |
N2 gen2 rep 2 |
| GSM4102124 |
N2 gen7 rep 1 |
| GSM4102125 |
N2 gen7 rep 2 |
| GSM4102126 |
N2 gen10 rep 1 |
| GSM4102127 |
N2 gen10 rep 2 |
| GSM4102128 |
C06A5.6 gen0 rep 1 |
| GSM4102129 |
C06A5.6 gen0 rep 2 |
| GSM4102130 |
C06A5.6 gen1 rep 1 |
| GSM4102131 |
C06A5.6 gen1 rep 2 |
| GSM4102132 |
C06A5.6 gen2 rep 1 |
| GSM4102133 |
C06A5.6 gen2 rep 2 |
| GSM4102134 |
C06A5.6 gen7 rep 1 |
| GSM4102135 |
C06A5.6 gen7 rep 2 |
| GSM4102136 |
C06A5.6 gen10 rep 1 |
| GSM4102137 |
C06A5.6 gen10 rep 2 |
| GSM4102138 |
rde-8 rep 1 |
| GSM4102139 |
Y57G11C.3 rep 1 |
| GSM4102140 |
C33G3.6 rep 1 |
| GSM4102141 |
C06A5.6;hpo40 rep1 |
| GSM4102142 |
N2 rep 1 |
| GSM4102143 |
C06A5.6 rep 1 |
| GSM4102144 |
wago-1 rep 1 |
| GSM4102145 |
hpo40 rep 1 |
| GSM4102146 |
math-33 rep 1 |
| GSM4102147 |
nyn-1;nyn-2 rep 1 |
| GSM4102148 |
mut-16 rep 1 |
| GSM4102149 |
hgo-1 rep 1 |
| GSM4102150 |
F37C4.5 rep 1 |
| GSM4102151 |
rsd-2 rep 1 |
| GSM4317817 |
wild-type - 20°C, replicate 1 |
| GSM4317818 |
wild-type - 20°C, replicate 2 |
| GSM4317819 |
wild-type - 20°C, replicate 3 |
| GSM4317820 |
wild-type - 25°C, 1 generation, replicate 1 |
| GSM4317821 |
wild-type - 25°C, 1 generation, replicate 2 |
| GSM4317822 |
wild-type - 25°C, 1 generation, replicate 3 |
| GSM4317823 |
wild-type - 25°C, 2 generation, replicate 1 |
| GSM4317824 |
wild-type - 25°C, 2 generation, replicate 2 |
| GSM4317825 |
wild-type - 25°C, 2 generation, replicate 3 |
| GSM4317826 |
wild-type - 25°C, 7 generation, replicate 1 |
| GSM4317827 |
wild-type - 25°C, 7 generation, replicate 2 |
| GSM4317828 |
wild-type - 25°C, 7 generation, replicate 3 |
| GSM4317829 |
wild-type - 25°C, 10 generation, replicate 1 |
| GSM4317830 |
wild-type - 25°C, 10 generation, replicate 2 |
| GSM4317831 |
wild-type - 25°C, 10 generation, replicate 3 |
| GSM4317832 |
simr-1 - 20°C, replicate 1 |
| GSM4317833 |
simr-1 - 20°C, replicate 2 |
| GSM4317834 |
simr-1 - 20°C, replicate 3 |
| GSM4317835 |
simr-1 - 25°C, 1 generation, replicate 1 |
| GSM4317836 |
simr-1 - 25°C, 1 generation, replicate 2 |
| GSM4317837 |
simr-1 - 25°C, 1 generation, replicate 3 |
| GSM4317838 |
simr-1 - 25°C, 2 generation, replicate 1 |
| GSM4317839 |
simr-1 - 25°C, 2 generation, replicate 2 |
| GSM4317840 |
simr-1 - 25°C, 2 generation, replicate 3 |
| GSM4317841 |
simr-1 - 25°C, 7 generation, replicate 1 |
| GSM4317842 |
simr-1 - 25°C, 7 generation, replicate 2 |
| GSM4317843 |
simr-1 - 25°C, 7 generation, replicate 3 |
| GSM4317844 |
simr-1 - 25°C, 10 generation, replicate 1 |
| GSM4317845 |
simr-1 - 25°C, 10 generation, replicate 2 |
| GSM4317846 |
simr-1 - 25°C, 10 generation, replicate 3 |
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| Relations |
| BioProject |
PRJNA575051 |
| SRA |
SRP223779 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE138220_RAW.tar |
52.1 Mb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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