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Series GSE91086 Query DataSets for GSE91086
Status Public on Jun 12, 2017
Title RNA association patterns of Salmonella cold shock proteins direct discovery of essential virulence function of CspC and CspE
Organism Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344
Experiment type Expression profiling by high throughput sequencing
Summary The functions of many bacterial RNA-binding proteins remain obscure due to a lack of knowledge of their cellular ligands. While well-studied cold-shock protein A (CspA) family members are induced and function at low temperature, other are highly expressed in infection-relevant conditions. Here, RNA ligand profiling of all CspA-family members linked CspC and CspE with Salmonella virulence pathways. Phenotypic assays in vitro demonstrated a crucial role for these proteins in membrane stress, motility, and biofilm formation. Moreover, deletion of cspC and cspE fully attenuates Salmonella in systemic mouse infection. Our results highlight RNA-binding proteins as regulators of pathogenicity and potential targets of antimicrobial therapy.
Overall design RIP-seq of bacterial cold-shock proteins; in vitro RNA-seq; RNA-seq in cell culture
Contributor(s) Barquist L, Michaux C
Citation(s) 28611217
Submission date Dec 09, 2016
Last update date May 15, 2019
Contact name Lars Barquist
Organization name Helmholtz Institute for RNA-based Infection Research
Street address Josef-Schneider-Straße 2 / Bau D15
City Würzburg
State/province Bayern
ZIP/Postal code 97080
Country Germany
Platforms (3)
GPL19729 Illumina HiSeq 2500 (Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344)
GPL20056 Illumina NextSeq 500 (Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344)
GPL22775 Illumina MiSeq (Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344)
Samples (26)
GSM2420805 EV_RIPseq
GSM2420806 Hfq_RIPseq
GSM2420807 CspA_RIPseq
BioProject PRJNA356844
SRA SRP094837

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE91086_DeltaCspCE_transcriptomics.txt.gz 354.8 Kb (ftp)(http) TXT
GSE91086_RAW.tar 56.5 Mb (http)(custom) TAR (of WIG)
GSE91086_RIP_quant.txt.gz 108.7 Kb (ftp)(http) TXT
GSE91086_csp_HeLa_Salmonella_counts.txt.gz 78.1 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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