Kraushar et al. 2021 (PRJNA661060)

General Details

Title Ebp1-selective ribosome profiling analysis of Neuro2a cells with Ebp1-immuno-precipitation
Organism
Number of Samples 4
Release Date 2020/09/02 00:00
Sequencing Types
Protocol Details

Study Links

Repository Details

SRA SRP279771
ENA SRP279771
GEO GSE157361
BioProject PRJNA661060

Publication

Title
Authors Kraushar ML,Krupp F,Harnett D,Turko P,Ambrozkiewicz MC,Sprink T,Imami K,Günnigmann M,Zinnall U,Vieira-Vieira CH,Schaub T,Münster-Wandowski A,Bürger J,Borisova E,Yamamoto H,Rasin MR,Ohler U,Beule D,Mielke T,Tarabykin V,Landthaler M,Kramer G,Vida I,Selbach M,Spahn CMT
Journal Molecular cell
Publication Date 2021 Jan 21
Abstract Protein synthesis must be finely tuned in the developing nervous system as the final essential step of gene expression. This study investigates the architecture of ribosomes from the neocortex during neurogenesis, revealing Ebp1 as a high-occupancy 60S peptide tunnel exit (TE) factor during protein synthesis at near-atomic resolution by cryoelectron microscopy (cryo-EM). Ribosome profiling demonstrated Ebp1-60S binding is highest during start codon initiation and N-terminal peptide elongation, regulating ribosome occupancy of these codons. Membrane-targeting domains emerging from the 60S tunnel, which recruit SRP/Sec61 to the shared binding site, displace Ebp1. Ebp1 is particularly abundant in the early-born neural stem cell (NSC) lineage and regulates neuronal morphology. Ebp1 especially impacts the synthesis of membrane-targeted cell adhesion molecules (CAMs), measured by pulsed stable isotope labeling by amino acids in cell culture (pSILAC)/bioorthogonal noncanonical amino acid tagging (BONCAT) mass spectrometry (MS). Therefore, Ebp1 is a central component of protein synthesis, and the ribosome TE is a focal point of gene expression control in the molecular specification of neuronal morphology during development. Copyright © 2020 Elsevier Inc. All rights reserved.
PMC PMC8163098
PMID 33357414
DOI
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)
SRR12572801 PRJNA661060 Mus musculus Neuro2a
SRR12572802 PRJNA661060 Mus musculus Neuro2a
SRR12572803 PRJNA661060 Mus musculus Neuro2a RNA-Seq
SRR12572804 PRJNA661060 Mus musculus Neuro2a RNA-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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