title: Bacteria differently regulate mRNA abundance to specifically respond to various stresses.
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.
authors: Department of Biochemsitry, University of Potsdam, Karl-Liebknecht-Straße 24-25, Potsdam 14476, Germany Institute for Biochemsitry and Molecular Biology, Department of Chemistry, University of Hamburg, Martin-Luther-King-Platz 6, Hamburg 20146, Germany.
authors: Alexander
authors: A
authors: Bartholomäus
authors: Department of Biochemsitry, University of Potsdam, Karl-Liebknecht-Straße 24-25, Potsdam 14476, Germany.
authors: Ivan
authors: I
authors: Fedyunin
authors: Department of Biochemsitry, University of Potsdam, Karl-Liebknecht-Straße 24-25, Potsdam 14476, Germany.
authors: Peter
authors: P
authors: Feist
authors: Department of Theory and Bio-Systems, Max Planck Institute of Colloids and Interfaces, Potsdam 14476, Germany.
authors: Celine
authors: C
authors: Sin
authors: Department of Biochemsitry, University of Potsdam, Karl-Liebknecht-Straße 24-25, Potsdam 14476, Germany.
authors: Gong
authors: G
authors: Zhang
authors: Department of Theory and Bio-Systems, Max Planck Institute of Colloids and Interfaces, Potsdam 14476, Germany.
authors: Angelo
authors: A
authors: Valleriani
authors: Department of Biochemsitry, University of Potsdam, Karl-Liebknecht-Straße 24-25, Potsdam 14476, Germany Institute for Biochemsitry and Molecular Biology, Department of Chemistry, University of Hamburg, Martin-Luther-King-Platz 6, Hamburg 20146, Germany zoya.ignatova@uni-hamburg.de.
authors: Zoya
authors: Z
authors: Ignatova
mesh_terms: D004926:Escherichia coli / Q000235:genetics* / Q000502:physiology*; D018869:Heat-Shock Response / Q000235:genetics; D012329:RNA, Bacterial / Q000235:genetics*; D012333:RNA, Messenger / Q000235:genetics; D013312:Stress, Physiological / Q000235:genetics*
chemical_list: D012329:RNA, Bacterial; D012333:RNA, Messenger
keywords: Escherichia coli; copy numbers; deep sequencing; transcription; translation