Davari et al. 2017 (PRJNA325659)

General Details

Title Rapid Genome-wide Recruitment of RNA Polymerase II Drives Transcription, Splicing and Translation Events during T Cell Responses
Organism
Number of Samples 8
Release Date 2016/06/14 00:00
Sequencing Types
Protocol Details

Study Links

Repository Details

SRA SRP076551
ENA SRP076551
GEO GSE83351
BioProject PRJNA325659

Publication

Title
Authors Davari K,Lichti J,Gallus C,Greulich F,Uhlenhaut NH,Heinig M,Friedel CC,Glasmacher E
Journal Cell reports
Publication Date 2017 Apr 18
Abstract Activation of immune cells results in rapid functional changes, but how such fast changes are accomplished remains enigmatic. By combining time courses of 4sU-seq, RNA-seq, ribosome profiling (RP), and RNA polymerase II (RNA Pol II) ChIP-seq during T cell activation, we illustrate genome-wide temporal dynamics for ∼10,000 genes. This approach reveals not only immediate-early and posttranscriptionally regulated genes but also coupled changes in transcription and translation for >90% of genes. Recruitment, rather than release of paused RNA Pol II, primarily mediates transcriptional changes. This coincides with a genome-wide temporary slowdown in cotranscriptional splicing, even for polyadenylated mRNAs that are localized at the chromatin. Subsequent splicing optimization correlates with increasing Ser-2 phosphorylation of the RNA Pol II carboxy-terminal domain (CTD) and activation of the positive transcription elongation factor (pTEFb). Thus, rapid de novo recruitment of RNA Pol II dictates the course of events during T cell activation, particularly transcription, splicing, and consequently translation. Copyright © 2017 The Authors. Published by Elsevier Inc. All rights reserved.
PMC
PMID 28423325
DOI
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)
SRR3666767 PRJNA325659 Mus musculus Th1 effector cell (CD4+ T cell) Ribo-Seq
SRR3666768 PRJNA325659 Mus musculus Th1 effector cell (CD4+ T cell) Ribo-Seq
SRR3666769 PRJNA325659 Mus musculus Th1 effector cell (CD4+ T cell) Ribo-Seq
SRR3666770 PRJNA325659 Mus musculus Th1 effector cell (CD4+ T cell) Ribo-Seq
SRR3666771 PRJNA325659 Mus musculus Th1 effector cell (CD4+ T cell) Ribo-Seq
SRR3666772 PRJNA325659 Mus musculus Th1 effector cell (CD4+ T cell) Ribo-Seq
SRR3666773 PRJNA325659 Mus musculus Th1 effector cell (CD4+ T cell) Ribo-Seq
SRR3666774 PRJNA325659 Mus musculus Th1 effector cell (CD4+ T cell) 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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