Gu et al. 2021 (PRJNA734658)
General Details
Title | Bi-directional ribosome scanning controls the stringency of start codon selection |
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Organism | |
Number of Samples | 22 |
Release Date | 2021/06/02 00:00 |
Sequencing Types | |
Protocol Details |
Study Links
GWIPS-viz | Trips-Viz |
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Repository Details
SRA | SRP322410 |
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ENA | SRP322410 |
GEO | |
BioProject | PRJNA734658 |
Publication
Title | |
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Authors | Gu Y,Mao Y,Jia L,Dong L,Qian SB |
Journal | Nature communications |
Publication Date | 2021 Nov 15 |
Abstract | The fidelity of start codon recognition by ribosomes is paramount during protein synthesis. The current knowledge of eukaryotic translation initiation implies unidirectional 5'→3' migration of the pre-initiation complex (PIC) along the 5' UTR. In probing translation initiation from ultra-short 5' UTR, we report that an AUG triplet near the 5' end can be selected via PIC backsliding. Bi-directional ribosome scanning is supported by competitive selection of closely spaced AUG codons and recognition of two initiation sites flanking an internal ribosome entry site. Transcriptome-wide PIC profiling reveals footprints with an oscillation pattern near the 5' end and start codons. Depleting the RNA helicase eIF4A leads to reduced PIC oscillations and impaired selection of 5' end start codons. Enhancing the ATPase activity of eIF4A promotes nonlinear PIC scanning and stimulates upstream translation initiation. The helicase-mediated PIC conformational switch may provide an operational mechanism that unifies ribosome recruitment, scanning, and start codon selection. © 2021. The Author(s). |
PMC | PMC8593136 |
PMID | 34782646 |
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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SRR14714407 | PRJNA734658 | Mus musculus | Mouse embryonic fibroblasts | Ribo-Seq | |||||||||
SRR14714408 | PRJNA734658 | Mus musculus | Mouse embryonic fibroblasts | Ribo-Seq | |||||||||
SRR14714409 | PRJNA734658 | Mus musculus | Mouse embryonic fibroblasts | Ribo-Seq | |||||||||
SRR14714410 | PRJNA734658 | Mus musculus | Mouse embryonic fibroblasts | Ribo-Seq | |||||||||
SRR14714411 | PRJNA734658 | Mus musculus | Mouse embryonic fibroblasts | Ribo-Seq | |||||||||
SRR14714412 | PRJNA734658 | Mus musculus | Mouse embryonic fibroblasts | Ribo-Seq | |||||||||
SRR14714413 | PRJNA734658 | Mus musculus | Mouse embryonic fibroblasts | Ribo-Seq | |||||||||
SRR14714414 | PRJNA734658 | Mus musculus | Mouse embryonic fibroblasts | Ribo-Seq | |||||||||
SRR14714415 | PRJNA734658 | Mus musculus | Mouse embryonic fibroblasts | Ribo-Seq | |||||||||
SRR14714416 | PRJNA734658 | Mus musculus | Mouse embryonic fibroblasts | Ribo-Seq | |||||||||
SRR14714417 | PRJNA734658 | Mus musculus | Mouse embryonic fibroblasts | Ribo-Seq | |||||||||
SRR14714418 | PRJNA734658 | Mus musculus | Mouse embryonic fibroblasts | Ribo-Seq | |||||||||
SRR14714419 | PRJNA734658 | Mus musculus | Mouse embryonic fibroblasts | Ribo-Seq | |||||||||
SRR14714420 | PRJNA734658 | Mus musculus | Mouse embryonic fibroblasts | Ribo-Seq | |||||||||
SRR14714421 | PRJNA734658 | Homo sapiens | HEK293 | Ribo-Seq | |||||||||
SRR14714422 | PRJNA734658 | Homo sapiens | HEK293 | Ribo-Seq | |||||||||
SRR14714423 | PRJNA734658 | Homo sapiens | HEK293 | Ribo-Seq | |||||||||
SRR14714424 | PRJNA734658 | Homo sapiens | HEK293 | Ribo-Seq | |||||||||
SRR14714425 | PRJNA734658 | Homo sapiens | HEK293 | Ribo-Seq | |||||||||
SRR14714426 | PRJNA734658 | Homo sapiens | HEK293 | Ribo-Seq | |||||||||
SRR16077415 | PRJNA734658 | Mus musculus | Mouse embryonic fibroblasts | Ribo-Seq | |||||||||
SRR16077416 | PRJNA734658 | Mus musculus | Mouse embryonic fibroblasts | 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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