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Series GSE67950 Query DataSets for GSE67950
Status Public on Dec 11, 2015
Title Dual RNA-seq – Pulse-expression of pinT
Organisms Homo sapiens; Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344
Experiment type Expression profiling by high throughput sequencing
Summary Bacteria possess many small noncoding RNAs whose regulatory roles in pathogenesis are little understood due to a paucity of macroscopic phenotypes in standard virulence assays. Here, we use a novel Dual RNA-seq approach for a single-step simultaneous RNA profiling in both pathogen and host to reveal molecular phenotypes of sRNAs during infection with Salmonella Typhimurium. We identify a new PhoP/Q-activated small RNA which upon bacterial internalization acts to temporally control the expression of both, invasion-associated effectors and virulence genes required for intracellular survival. This riboregulatory activity is shown to adjust the human response to replicating Salmonella, and have a pervasive impact on host RNA expression both inside and outside protein-coding regions including infection-specific alterations of an array of long noncoding RNAs. Our study provides a paradigm for a comprehensive RNA-based analysis of intracellular bacterial pathogens without their physical purification from a host and a new discovery route for hidden functions of pathogen genes.
 
Overall design Pulse-expression of pinT
 
Contributor(s) Westermann AJ, Förstner KU, Amman F, Barquist LE, Schulte LN, Chao Y, Müller L, Reinhardt R, Stadler PF, Vogel J
Citation(s) 26789254
Submission date Apr 16, 2015
Last update date May 15, 2019
Contact name Konrad U. Förstner
E-mail(s) foerstner@zbmed.de
Organization name ZB MED - Information Centre for Life Sciences
Department Information Services
Lab Förstner Lab
Street address Gleueler Str. 60
City Cologne
State/province North Rhine-Westphalia
ZIP/Postal code 50931
Country Germany
 
Platforms (2)
GPL20050 Illumina HiSeq 2000 (Homo sapiens; Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344)
GPL20062 Illumina MiSeq (Homo sapiens; Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344)
Samples (12)
GSM1659495 SPI-1 empty vector 5 min ara replicate 1
GSM1659496 SPI-1 pinT vector 5 min ara replicate 1
GSM1659497 SPI-1 empty vector 5 min ara replicate 2
This SubSeries is part of SuperSeries:
GSE60144 Dual RNA-seq of diverse human, mouse and pig cell-types infected with various Salmonella strains
Relations
BioProject PRJNA281340
SRA SRP057248

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
GSE67950_Raw_gene_wise_quantifications_Human_and_Salmonella.csv.gz 593.4 Kb (ftp)(http) CSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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