Aeschimann et al. 2017 (PRJNA318047)
General Details
Title | Post-transcriptional regulation by the let-7 microRNA and the TRIM-NHL protein LIN41 [Ribosome footprinting] |
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Organism | |
Number of Samples | 46 |
Release Date | 2016/04/11 00:00 |
Sequencing Types | |
Protocol Details |
Study Links
GWIPS-viz | Trips-Viz |
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Repository Details
SRA | SRP073115 |
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ENA | SRP073115 |
GEO | GSE80133 |
BioProject | PRJNA318047 |
Publication
Title | |
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Authors | Aeschimann F,Kumari P,Bartake H,Gaidatzis D,Xu L,Ciosk R,Großhans H |
Journal | Molecular cell |
Publication Date | 2017 Feb 2 |
Abstract | The RNA-binding protein (RBP) LIN41, also known as LIN-41 or TRIM71, is a key regulator of animal development, but its physiological targets and molecular mechanism of action are largely elusive. Here we find that this RBP has two distinct mRNA-silencing activities. Using genome-wide ribosome profiling, RNA immunoprecipitation, and in vitro-binding experiments, we identify four mRNAs, each encoding a transcription factor or cofactor, as direct physiological targets of C. elegans LIN41. LIN41 silences three of these targets through their 3' UTRs, but it achieves isoform-specific silencing of one target, lin-29A, through its unique 5' UTR. Whereas the 3' UTR targets mab-10, mab-3, and dmd-3 undergo transcript degradation, lin-29A experiences translational repression. Through binding site transplantation experiments, we demonstrate that it is the location of the LIN41-binding site that specifies the silencing mechanism. Such position-dependent dual activity may, when studied more systematically, emerge as a feature shared by other RBPs. Copyright © 2017 Elsevier Inc. All rights reserved. |
PMC | |
PMID | 28111013 |
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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SRR3356477 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356478 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356479 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356480 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356481 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356482 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356483 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356484 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356485 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356486 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356487 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356488 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356489 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356490 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356491 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356492 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356493 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356494 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356495 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356496 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356497 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356498 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356499 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356500 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356501 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356502 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356503 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356504 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356505 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356506 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356507 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356508 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356509 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356510 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356511 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356512 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356513 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356514 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356515 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356516 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356517 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356518 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356519 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356520 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356521 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
SRR3356522 | PRJNA318047 | Caenorhabditis elegans | Ribo-Seq | ||||||||||
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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