 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Aug 14, 2020 |
| Title |
CDE-1 suppresses the production of risiRNA by coupling polyuridylation and degradation of 26S rRNA |
| Organism |
Caenorhabditis elegans |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
|
| Summary |
Antisense ribosomal siRNAs (risiRNAs) downregulate pre-rRNAs through the nuclear RNAi pathway in Caenorhabditis elegans. However, the biogenesis and regulation of risiRNAs remain obscure. Previously, we showed that 26S rRNAs are uridylated at the 3'-ends by an unknown terminal polyuridylation polymerase before the rRNAs are degraded by a 3' to 5' exoribonuclease SUSI-1(ceDIS3L2). There are three polyuridylation polymerases, CDE-1, PUP-2, and PUP-3, in C. elegans. Here, we found that CDE-1 is specifically involved in suppressing risiRNA production. CDE-1 localizes to perinuclear granules in the germline and uridylates both Argonaute-associated 22G-RNAs and 26S rRNAs at the 3'-ends. Immunoprecipitation followed by mass spectrometry (IP-MS) revealed that CDE-1 interacts with SUSI-1(ceDIS3L2). Consistent with those results, both CDE-1 and SUSI-1(ceDIS3L2) are required for the inheritance of RNAi. Therefore, this work identified a rRNA surveillance machinery of rRNAs that couples terminal polyuridylation and degradation.
|
| |
|
| Overall design |
In this study, we compared total small RNAs from (1) control animals; (2) cde-1(tm936) mutant. And we also compared the NRDE-3 associated small RNAs in (3) control embryo; (4) cde-1(tm936) embryo mutant; and (5)eri-1(mg366) L3 animals (6)eri-1(mg366);cde-1(tm936) L3 mutant; and HRDE-1 associated small RNAs in (7) control young adult animals; (8) cde-1(tm936) young adult mutant;and WAGO-1 associated small RNAs in (9) control young adult animals; (10) cde-1(tm936) young adult mutant;we also compared 26S rRNAs 3' tail-seq from (11,12) eri-1(mg366) embryo animals;(13,14)eri-1(mg366);cde-1(tm936) embryo animals and (15,16)eri-1(mg366);cde-1(tm936);cde-1::mCherry embryo animals, and compared 26S rRNAs 3' tail-seq from (17,18) eri-1(mg366) L3 animals;(19,20)eri-1(mg366);cde-1(tm936) L3 animals and (21,22)eri-1(mg366);cde-1(tm936);cde-1::mCherry L3 animals.
|
| |
|
| Contributor(s) |
Guang S |
| Citation(s) |
32887607 |
| |
| Submission date |
Oct 29, 2019 |
| Last update date |
Nov 10, 2020 |
| Contact name |
Shouhong Guang |
| E-mail(s) |
sguang@ustc.edu.cn
|
| Organization name |
University of Science & Technology of China
|
| Department |
School of Life Sciences
|
| Street address |
443 HuangShan Road
|
| City |
Hefei |
| State/province |
Anhui |
| ZIP/Postal code |
230027 |
| Country |
China |
| |
|
| Platforms (1) |
| GPL18245 |
Illumina HiSeq 2500 (Caenorhabditis elegans) |
|
| Samples (16)
|
| GSM4143066 |
NRDE3_IP_small_RNA_ cde-1(tm936)_GFPNRDE3 |
| GSM4143067 |
NRDE3_IP_small_RNA_ eri1(mg366)_GFPNRDE3 |
| GSM4143068 |
NRDE3_IP_small_RNA_eri1(mg366)_cde1(tm939)_GFPNRDE3 |
| GSM4143069 |
HRDE1_IP_small_RNA_GFPHRDE1 |
| GSM4143070 |
HRDE1_IP_small_RNA_cde1(tm936)_GFPHRDE1 |
| GSM4143071 |
WAGO1_IP_small_RNA_GFPWAGO1 |
| GSM4143072 |
WAGO_IP_small_RNA_cde1(tm936)_GFPWAGO1 |
| GSM4143073 |
26SrRNA_eri1(mg366)_GFPNRDE3_E |
| GSM4143074 |
26SrRNA_eri1(mg366)_cde1(tm936)_GFPNRDE3_E |
| GSM4143075 |
26SrRNA_eri1(mg366)_cde1(tm936)_GFPNRDE3_cde1mCHERRY_E |
| GSM4143076 |
26SrRNA_eri1(mg366)_GFPNRDE3_L |
| GSM4143077 |
26SrRNA_eri1(mg366)_cde1(tm936)_GFPNRDE3_L |
| GSM4143078 |
26SrRNA_eri1(mg366)_cde1(tm936)_GFPNRDE3_cde1mCHERRY_L |
|
| Relations |
| BioProject |
PRJNA580192 |
| SRA |
SRP227316 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE139530_26S_tail_seq_summary.txt.gz |
383 b |
(ftp)(http) |
TXT |
| GSE139530_RAW.tar |
7.8 Mb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
|
|
|
|
 |
Less...
More...