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| Status |
Public on Dec 11, 2015 |
| Title |
Dual RNA-seq – Pilot Dual RNA-seq |
| Organisms |
Homo sapiens; Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344 |
| Experiment type |
Expression profiling by high throughput sequencing
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| 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.
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| Overall design |
Pilot Dual RNA-seq: Infection of HeLa-S3 cells with wild-type Salmonella; 2 time points (4 h, 24 h p.i.; each sorted into invaded host cells [GFP+] and non-infected bystanders [GFP-]) and the respective human (4 h mock, 24 h mock) or bacterial reference controls (0 h LB, 0 h input), respectively. Three biological replicates were taken.
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| Contributor(s) |
Westermann AJ, Förstner KU, Amman F, Barquis LE, Schulte LN, Chao Y, Müller L, Reinhardt R, Stadler PF, Vogel J |
| Citation(s) |
26789254 |
| |
| Submission date |
Apr 10, 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 |
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| Platforms (1) |
| GPL20050 |
Illumina HiSeq 2000 (Homo sapiens; Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344) |
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| Samples (24)
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| This SubSeries is part of SuperSeries: |
| GSE60144 |
Dual RNA-seq of diverse human, mouse and pig cell-types infected with various Salmonella strains |
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| Relations |
| BioProject |
PRJNA280840 |
| SRA |
SRP057064 |
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