Cui et al. 2024 (PRJNA926112)
General Details
| Title | Ribosome Footprinting (RiboSeq) analysis of mRNA translation in HEK293T WT and METTL2A/2B/6 knockout cells |
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| Organism | |
| Number of Samples | 6 |
| Release Date | 2023/01/21 00:00 |
| Sequencing Types | |
| Protocol Details |
Study Links
| GWIPS-viz | Trips-Viz |
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Repository Details
| SRA | SRP418556 |
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| ENA | SRP418556 |
| GEO | |
| BioProject | PRJNA926112 |
Publication
| Title | |
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| Authors | Cui J,Sendinc E,Liu Q,Kim S,Fang JY,Gregory RI |
| Journal | Nature communications |
| Publication Date | 2024 Jul 10 |
| Abstract | The epitranscriptome includes a diversity of RNA modifications that influence gene expression. N3-methylcytidine (m 3 C) mainly occurs in the anticodon loop (position C32) of certain tRNAs yet its role is poorly understood. Here, using HAC-Seq, we report comprehensive METTL2A/2B-, METTL6-, and METTL2A/2B/6-dependent m 3 C profiles in human cells. METTL2A/2B modifies tRNA-arginine and tRNA-threonine members, whereas METTL6 modifies the tRNA-serine family. However, decreased m 3 C32 on tRNA-Ser-GCT isodecoders is only observed with combined METTL2A/2B/6 deletion. Ribo-Seq reveals altered translation of genes related to cell cycle and DNA repair pathways in METTL2A/2B/6-deficient cells, and these mRNAs are enriched in AGU codons that require tRNA-Ser-GCT for translation. These results, supported by reporter assays, help explain the observed altered cell cycle, slowed proliferation, and increased cisplatin sensitivity phenotypes of METTL2A/2B/6-deficient cells. Thus, we define METTL2A/2B/6-dependent methylomes and uncover a particular requirement of m 3 C32 tRNA modification for serine codon-biased mRNA translation of cell cycle, and DNA repair genes. © 2024. The Author(s). |
| PMC | PMC11233606 |
| PMID | 38982125 |
| 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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| SRR23176619 | PRJNA926112 | Homo sapiens | HEK293 | Ribo-Seq |  |
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| SRR23176618 | PRJNA926112 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR23176617 | PRJNA926112 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR23176616 | PRJNA926112 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR23176615 | PRJNA926112 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR23176614 | PRJNA926112 | Homo sapiens | HEK293 | Ribo-Seq | |
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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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