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Salmonella enterica subsp. enterica serovar Typhimurium str. ST4/74

ABSTRACT: Transcriptomic profiling of Salmonella Typhimurium upon desiccation on stainless steel and subsequent rehydration

PROVIDER: PRJNA202291 | ENA |

REPOSITORIES: ENA

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Transcriptomic profiling of Salmonella Typhimurium upon desiccation on stainless steel and subsequent rehydration

2013-05-09 | GSE46763 | GEO

Salmonella enterica serovar Typhimurium 4/74 transcriptomics using strand-specific RNA-seq

Project description:Bacterial transcription networks typically consist of hundreds of transcription factors and thousands of promoters. However, current attempts to map bacterial promoters have failed to report the true complexity of bacterial transcription. The differential RNA-seq (dRNA-seq) approaches only identified a subset of promoters because they involved few growth conditions. Here, we present a simplified approach for global promoter identification in bacteria, based upon the analysis of RNA-seq data from multiple environmental conditions. RNA was extracted from Salmonella enterica serovar Typhimurium (S. Typhimurium) grown in 22 different environmental conditions, which were devised to reflect the pathogenic lifestyle of S. Typhimurium. Individual RNA samples were combined into two pools for sequencing. In just two runs of strand-specific RNA-seq and dRNA-seq of the pooled sample we identified 3701 promoters (Pool sample). In further experiments, we found that individual in vitro conditions stimulate the expression of about 60% of the S. Typhimurium genome, whereas the suite of 22 conditions induced expression of 87% of S. Typhimurium genes. We discovered environmental conditions that induce many genes within Salmonella pathogenicity islands and identified 78 new sRNAs. In S. Typhimurium there is now experimental evidence for 280 sRNAs, and we classified them in terms of location and Hfq-binding.

2013-12-18 | GSE49829 | GEO

Transcriptomic profiling of Salmonella Typhimurium upon desiccation on stainless steel and subsequent rehydration

Project description:Transcriptional profiles of Salmonella Typhimurium str. ST4/74 air-dried onto stainless steel for 4 h was compared to an early stationary phase (ESP) culture control. Cells that had been air-dried for 4 h were then subsequently rehydrated with water for a 30 min period, after which the transcriptional profile was compared to an ESP control. Carried out using 2 biological replicates for each sample; hybridised in a two-channel hybridization against Salmonella genomic DNA as the comparator/reference.

2013-05-09 | E-GEOD-46763 | biostudies-arrayexpress

Salmonella enterica subsp. enterica serovar Typhimurium str. ST4/74

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Salmonella enterica subsp. enterica serovar Typhimurium str. ST4/74

Project description:Salmonella enterica subsp. enterica serovar Typhimurium Genome sequencing

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Salmonella enterica serovar Typhimurium 4/74 transcriptomics using strand-specific RNA-seq

2013-12-18 | E-GEOD-49829 | biostudies-arrayexpress

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Project description:Salmonella enterica subsp. enterica serovar Typhimurium str. 474 genome sequencing project

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