Zhang et al. 2018 (PRJNA401857)
General Details
Title | A stress response that monitors and regulates mRNA structure is central to cold-shock adaptation |
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Organism | |
Number of Samples | 24 |
Release Date | 2017/09/04 00:00 |
Sequencing Types | |
Protocol Details |
Study Links
GWIPS-viz | Trips-Viz |
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Repository Details
SRA | SRP117035 |
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ENA | SRP117035 |
GEO | GSE103421 |
BioProject | PRJNA401857 |
Publication
Title | |
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Authors | Zhang Y,Burkhardt DH,Rouskin S,Li GW,Weissman JS,Gross CA |
Journal | Molecular cell |
Publication Date | 2018 Apr 19 |
Abstract | Temperature influences the structural and functional properties of cellular components, necessitating stress responses to restore homeostasis following temperature shift. Whereas the circuitry controlling the heat shock response is well understood, that controlling the E. coli cold shock adaptation program is not. We found that during the growth arrest phase (acclimation) that follows shift to low temperature, protein synthesis increases, and open reading frame (ORF)-wide mRNA secondary structure decreases. To identify the regulatory system controlling this process, we screened for players required for increased translation. We identified a two-member mRNA surveillance system that enables recovery of translation during acclimation: RNase R assures appropriate mRNA degradation and the Csps dynamically adjust mRNA secondary structure to globally modulate protein expression level. An autoregulatory switch in which Csps tune their own expression to cellular demand enables dynamic control of global translation. The universality of Csps in bacteria suggests broad utilization of this control mechanism. Copyright © 2018 Elsevier Inc. All rights reserved. |
PMC | PMC5910227 |
PMID | 29628307 |
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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SRR6001737 | PRJNA401857 | Escherichia coli | Ribo-Seq | ||||||||||
SRR6001738 | PRJNA401857 | Escherichia coli | Ribo-Seq | ||||||||||
SRR6001739 | PRJNA401857 | Escherichia coli | Ribo-Seq | ||||||||||
SRR6001740 | PRJNA401857 | Escherichia coli | Ribo-Seq | ||||||||||
SRR6001741 | PRJNA401857 | Escherichia coli | Ribo-Seq | ||||||||||
SRR6001742 | PRJNA401857 | Escherichia coli | Ribo-Seq | ||||||||||
SRR6001743 | PRJNA401857 | Escherichia coli | Ribo-Seq | ||||||||||
SRR6001744 | PRJNA401857 | Escherichia coli | Ribo-Seq | ||||||||||
SRR6001745 | PRJNA401857 | Escherichia coli | Ribo-Seq | ||||||||||
SRR6001746 | PRJNA401857 | Escherichia coli | Ribo-Seq | ||||||||||
SRR6001747 | PRJNA401857 | Escherichia coli | Ribo-Seq | ||||||||||
SRR6001748 | PRJNA401857 | Escherichia coli | Ribo-Seq | ||||||||||
SRR6001749 | PRJNA401857 | Escherichia coli | Ribo-Seq | ||||||||||
SRR6001750 | PRJNA401857 | Escherichia coli | Ribo-Seq | ||||||||||
SRR6001751 | PRJNA401857 | Escherichia coli | RNA-Seq | ||||||||||
SRR6001752 | PRJNA401857 | Escherichia coli | RNA-Seq | ||||||||||
SRR6123777 | PRJNA401857 | Escherichia coli | RNA-Seq | ||||||||||
SRR6507966 | PRJNA401857 | Escherichia coli | RNA-Seq | ||||||||||
SRR6507967 | PRJNA401857 | Escherichia coli | RNA-Seq | ||||||||||
SRR6507968 | PRJNA401857 | Escherichia coli | RNA-Seq | ||||||||||
SRR6507969 | PRJNA401857 | Escherichia coli | RNA-Seq | ||||||||||
SRR6507970 | PRJNA401857 | Escherichia coli | RNA-Seq | ||||||||||
SRR6507971 | PRJNA401857 | Escherichia coli | RNA-Seq | ||||||||||
SRR6507972 | PRJNA401857 | Escherichia coli | 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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