Hacisuleyman et al. 2024 (PRJNA878797)
General Details
| Title | Total and dendritic ribosome profiling from primary mouse cortical neurons |
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| Organism | |
| Number of Samples | 24 |
| Release Date | 2022/09/09 00:00 |
| Sequencing Types | |
| Protocol Details |
Study Links
| GWIPS-viz | Trips-Viz |
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Repository Details
| SRA | SRP396440 |
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| ENA | SRP396440 |
| GEO | |
| BioProject | PRJNA878797 |
Publication
| Title | |
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| Authors | Hacisuleyman E,Hale CR,Noble N,Luo JD,Fak JJ,Saito M,Chen J,Weissman JS,Darnell RB |
| Journal | Nature neuroscience |
| Publication Date | 2024 Apr 8 |
| Abstract | Learning and memory require activity-induced changes in dendritic translation, but which mRNAs are involved and how they are regulated are unclear. In this study, to monitor how depolarization impacts local dendritic biology, we employed a dendritically targeted proximity labeling approach followed by crosslinking immunoprecipitation, ribosome profiling and mass spectrometry. Depolarization of primary cortical neurons with KCl or the glutamate agonist DHPG caused rapid reprogramming of dendritic protein expression, where changes in dendritic mRNAs and proteins are weakly correlated. For a subset of pre-localized messages, depolarization increased the translation of upstream open reading frames (uORFs) and their downstream coding sequences, enabling localized production of proteins involved in long-term potentiation, cell signaling and energy metabolism. This activity-dependent translation was accompanied by the phosphorylation and recruitment of the non-canonical translation initiation factor eIF4G2, and the translated uORFs were sufficient to confer depolarization-induced, eIF4G2-dependent translational control. These studies uncovered an unanticipated mechanism by which activity-dependent uORF translational control by eIF4G2 couples activity to local dendritic remodeling. © 2024. The Author(s). |
| PMC | |
| PMID | 38589584 |
| 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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| SRR21503389 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | Cycloheximide |  |
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| SRR21503388 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | |
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| SRR21503387 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | |
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| SRR21503386 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | |
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| SRR21503385 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | |
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| SRR21503384 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | Cycloheximide | |
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| SRR21503383 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | Cycloheximide | |
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| SRR21503382 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | Cycloheximide | |
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| SRR21503381 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | Cycloheximide | |
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| SRR21503380 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | |
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| SRR21503379 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | |
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| SRR21503378 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | |
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| SRR21503377 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | |
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| SRR21503376 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | Cycloheximide | |
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| SRR21503375 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | Cycloheximide | |
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| SRR21503374 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | Cycloheximide | |
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| SRR21503373 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | |
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| SRR21503372 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | |
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| SRR21503371 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | |
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| SRR21503370 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | |
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| SRR21503369 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | Cycloheximide | |
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| SRR21503368 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | Cycloheximide | |
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| SRR21503367 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | Cycloheximide | |
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| SRR21503366 | PRJNA878797 | Mus musculus | primary neuronal culture (cortical) | Ribo-Seq | Cycloheximide | |
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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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