Saito et al. 2022 (PRJNA789247)
General Details
| Title | RNA-seq and Ribo-seq of Ythdc2KO and Ythdc2-WLA mutants |
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| Organism | |
| Number of Samples | 12 |
| Release Date | 2021/12/15 00:00 |
| Sequencing Types | |
| Protocol Details |
Study Links
| GWIPS-viz | Trips-Viz |
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Repository Details
| SRA | SRP350895 |
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| ENA | SRP350895 |
| GEO | GSE190980 |
| BioProject | PRJNA789247 |
Publication
| Title | |
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| Authors | Saito Y, Hawley BR, Puno MR, Sarathy SN, Lima CD, Jaffrey SR, Darnell RB, Keeney S, Jain D |
| Journal | Genes & development |
| Publication Date | 2022 Feb 1 |
| Abstract | Mechanisms regulating meiotic progression in mammals are poorly understood. The N 6 -methyladenosine (m 6 A) reader and 3' → 5' RNA helicase YTHDC2 switches cells from mitotic to meiotic gene expression programs and is essential for meiotic entry, but how this critical cell fate change is accomplished is unknown. Here, we provide insight into its mechanism and implicate YTHDC2 in having a broad role in gene regulation during multiple meiotic stages. Unexpectedly, mutation of the m 6 A-binding pocket of YTHDC2 had no detectable effect on gametogenesis and mouse fertility, suggesting that YTHDC2 function is m 6 A-independent. Supporting this conclusion, CLIP data defined YTHDC2-binding sites on mRNA as U-rich and UG-rich motif-containing regions within 3' UTRs and coding sequences, distinct from the sites that contain m 6 A during spermatogenesis. Complete loss of YTHDC2 during meiotic entry did not substantially alter translation of its mRNA binding targets in whole-testis ribosome profiling assays but did modestly affect their steady-state levels. Mutation of the ATPase motif in the helicase domain of YTHDC2 did not affect meiotic entry, but it blocked meiotic prophase I progression, causing sterility. Our findings inform a model in which YTHDC2 binds transcripts independent of m 6 A status and regulates gene expression during multiple stages of meiosis by distinct mechanisms. © 2022 Saito et al.; Published by Cold Spring Harbor Laboratory Press. |
| PMC | PMC8887132 |
| PMID | 35058317 |
| 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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| SRR17238161 | PRJNA789247 | Mus musculus | 0.0 | Ribo-Seq | 0.0 |  |
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| SRR17238160 | PRJNA789247 | Mus musculus | 0.0 | Ribo-Seq | 0.0 | |
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| SRR17238159 | PRJNA789247 | Mus musculus | 0.0 | Ribo-Seq | 0.0 | |
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| SRR17238158 | PRJNA789247 | Mus musculus | 0.0 | Ribo-Seq | 0.0 | |
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| SRR17238157 | PRJNA789247 | Mus musculus | 0.0 | Ribo-Seq | 0.0 | |
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| SRR17238156 | PRJNA789247 | Mus musculus | 0.0 | Ribo-Seq | 0.0 | |
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| SRR17238155 | PRJNA789247 | Mus musculus | 0.0 | Ribo-Seq | 0.0 | |
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| SRR17238154 | PRJNA789247 | Mus musculus | 0.0 | Ribo-Seq | 0.0 | |
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| SRR17238153 | PRJNA789247 | Mus musculus | 0.0 | Ribo-Seq | 0.0 | |
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| SRR17238152 | PRJNA789247 | Mus musculus | 0.0 | Ribo-Seq | 0.0 | |
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| SRR17238151 | PRJNA789247 | Mus musculus | 0.0 | Ribo-Seq | 0.0 | |
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| SRR17238150 | PRJNA789247 | Mus musculus | 0.0 | Ribo-Seq | 0.0 | |
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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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