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Status |
Public on Dec 11, 2015 |
Title |
Dual RNA-seq – rRNA depletion establishment |
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 |
rRNA depletion establishment
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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 |
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Submission date |
Apr 10, 2015 |
Last update date |
May 15, 2019 |
Contact name |
Konrad U. Förstner |
E-mail(s) |
foerstner@zbmed.de
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Organization name |
ZB MED - Information Centre for Life Sciences
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Department |
Information Services
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Lab |
Förstner Lab
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Street address |
Gleueler Str. 60
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City |
Cologne |
State/province |
North Rhine-Westphalia |
ZIP/Postal code |
50931 |
Country |
Germany |
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Platforms (1) |
GPL20051 |
Illumina NextSeq 500 (Homo sapiens; Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344) |
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Samples (2) |
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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 |
PRJNA280838 |
SRA |
SRP057066 |