Singh et al. 2021 (PRJNA648380)
General Details
| Title | Translation and codon usage regulate Argonaute slicer activity to trigger germline small RNA biogenesis [Ribo-Seq] |
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| Organism | |
| Number of Samples | 14 |
| Release Date | 2020/07/24 00:00 |
| Sequencing Types | |
| Protocol Details |
Study Links
| GWIPS-viz | Trips-Viz |
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Repository Details
| SRA | SRP273441 |
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| ENA | SRP273441 |
| GEO | |
| BioProject | PRJNA648380 |
Publication
| Title | |
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| Authors | Singh M,Cornes E,Li B,Quarato P,Bourdon L,Dingli F,Loew D,Proccacia S,Cecere G |
| Journal | Nature communications |
| Publication Date | 2021 Jun 9 |
| Abstract | In the Caenorhabditis elegans germline, thousands of mRNAs are concomitantly expressed with antisense 22G-RNAs, which are loaded into the Argonaute CSR-1. Despite their essential functions for animal fertility and embryonic development, how CSR-1 22G-RNAs are produced remains unknown. Here, we show that CSR-1 slicer activity is primarily involved in triggering the synthesis of small RNAs on the coding sequences of germline mRNAs and post-transcriptionally regulates a fraction of targets. CSR-1-cleaved mRNAs prime the RNA-dependent RNA polymerase, EGO-1, to synthesize 22G-RNAs in phase with translating ribosomes, in contrast to other 22G-RNAs mostly synthesized in germ granules. Moreover, codon optimality and efficient translation antagonize CSR-1 slicing and 22G-RNAs biogenesis. We propose that codon usage differences encoded into mRNA sequences might be a conserved strategy in eukaryotes to regulate small RNA biogenesis and Argonaute targeting. |
| PMC | PMC8190271 |
| PMID | 34108460 |
| DOI |
| Run Accession | Study Accession | Scientific Name | Cell Line | Library Type | Treatment | GWIPS-viz | Trips-Viz | Reads | BAM | BigWig (F) | BigWig (R) | ||
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| SRR12318105 | PRJNA648380 | Caenorhabditis elegans | Ribo-Seq | untreated |  |
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| SRR12318106 | PRJNA648380 | Caenorhabditis elegans | Ribo-Seq | untreated | |
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| SRR12318107 | PRJNA648380 | Caenorhabditis elegans | Ribo-Seq | untreated | |
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| SRR12318108 | PRJNA648380 | Caenorhabditis elegans | Ribo-Seq | untreated | |
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| SRR12318109 | PRJNA648380 | Caenorhabditis elegans | Ribo-Seq | untreated | |
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| SRR12318110 | PRJNA648380 | Caenorhabditis elegans | Ribo-Seq | untreated | |
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| SRR12318111 | PRJNA648380 | Caenorhabditis elegans | Ribo-Seq | untreated | |
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| SRR12318112 | PRJNA648380 | Caenorhabditis elegans | Ribo-Seq | untreated | |
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| SRR12318113 | PRJNA648380 | Caenorhabditis elegans | Ribo-Seq | untreated | |
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| SRR12318114 | PRJNA648380 | Caenorhabditis elegans | Ribo-Seq | untreated | |
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| SRR12318115 | PRJNA648380 | Caenorhabditis elegans | Ribo-Seq | untreated | |
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| SRR12318116 | PRJNA648380 | Caenorhabditis elegans | Ribo-Seq | untreated | |
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| SRR12318117 | PRJNA648380 | Caenorhabditis elegans | Ribo-Seq | untreated | |
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| SRR12318118 | PRJNA648380 | Caenorhabditis elegans | Ribo-Seq | untreated | |
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| Run Accession | Study Accession | Scientific Name | Cell Line | Library Type | Treatment | GWIPS-viz | Trips-Viz | Reads | BAM | BigWig (F) | BigWig (R) |
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