Bartholomäus et al. 2015 (PRJNA283800)

General Details

Title Bacteria differently regulate mRNA abundance to specifically respond to various stresses
Organism
Number of Samples 5
Release Date 2015/05/11 00:00
Sequencing Types
Protocol Details

Study Links

Repository Details

SRA SRP058200
ENA SRP058200
GEO GSE68762
BioProject PRJNA283800

Publication

Title
Authors Bartholomäus A, Fedyunin I, Feist P, Sin C, Zhang G, Valleriani A, Ignatova Z
Journal Philosophical transactions. Series A, Mathematical, physical, and engineering sciences
Publication Date 2016 Mar 13
Abstract Environmental stress is detrimental to cell viability and requires an adequate reprogramming of cellular activities to maximize cell survival. We present a global analysis of the response of Escherichia coli to acute heat and osmotic stress. We combine deep sequencing of total mRNA and ribosome-protected fragments to provide a genome-wide map of the stress response at transcriptional and translational levels. For each type of stress, we observe a unique subset of genes that shape the stress-specific response. Upon temperature upshift, mRNAs with reduced folding stability up- and downstream of the start codon, and thus with more accessible initiation regions, are translationally favoured. Conversely, osmotic upshift causes a global reduction of highly translated transcripts with high copy numbers, allowing reallocation of translation resources to not degraded and newly synthesized mRNAs. © 2016 The Author(s).
PMC
PMID 26857681
DOI
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)
SRR2016457 PRJNA283800 Escherichia coli 0.0 Ribo-Seq 0.0
SRR2016459 PRJNA283800 Escherichia coli 0.0 Ribo-Seq 0.0
SRR2016461 PRJNA283800 Escherichia coli 0.0 Ribo-Seq 0.0
SRR2016463 PRJNA283800 Escherichia coli 0.0 Ribo-Seq 0.0
SRR2016465 PRJNA283800 Escherichia coli 0.0 Ribo-Seq 0.0
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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