Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Validated transcriptional regulatory roles for five two-component systems in E. coli

ABSTRACT: Validated transcriptional regulatory roles for five two-component systems in E. coli

PROVIDER: PRJNA601908 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR10907640_1.fastq.gz	Fastqsanger.gz
	SRR10907640_2.fastq.gz	Fastqsanger.gz
	SRR10907641_1.fastq.gz	Fastqsanger.gz
	SRR10907641_2.fastq.gz	Fastqsanger.gz
	SRR10907242.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 84

Similar Datasets

Validated transcriptional regulatory roles for five two-component systems in E. coli (ChIP-exo dataset)

Project description:Validated transcriptional regulatory roles for five two-component systems in E. coli (ChIP-exo dataset)

| PRJNA601898 | ENA

Validated transcriptional regulatory roles for five two-component systems in E. coli (RNA-seq dataset)

Project description:Validated transcriptional regulatory roles for five two-component systems in E. coli (RNA-seq dataset)

| PRJNA601909 | ENA

Validated transcriptional regulatory roles for five two-component systems in E. coli (RNA-seq dataset)

Project description:Escherichia coli use two-component systems (TCSs) to respond to environmental signals. TCSs affect gene expression and are parts of E. coli’s global transcriptional regulatory network (TRN). Here, we identified the regulons of five TCSs in E. coli MG1655: BaeSR and CpxAR, which were stimulated by ethanol stress, and KdpDE, PhoRB, and ZraSR, which were stimulated by potassium, phosphate, and zinc, respectively. We analyzed RNA-seq data using independent component analysis (ICA). ChIP-exo data was used to validate condition-specific target gene binding sites. Based on this data we (1) identify the target genes for each TCS; (2) show how the target genes are transcribed in response to stimulus; and (3) reveal novel relationships between TCSs, which indicate non-cognate inducers for various response regulators, such as BaeR to iron starvation, CpxR to phosphate limitation, and PhoB and ZraR to cell envelope stress. Our understanding of the TRN in E. coli is thus notably expanded.

2020-10-21 | GSE143855 | GEO

Validated transcriptional regulatory roles for five two-component systems in E. coli (ChIP-exo dataset)

2020-10-21 | GSE143851 | GEO

Validated transcriptional regulatory roles for five two-component systems in E. coli

Project description:This SuperSeries is composed of the SubSeries listed below.

2020-10-21 | GSE143856 | GEO

Analysis of Two Component Systems in Group B Streptococcus

Project description:Group B Streptococcus (GBS), in its transition from commensal to pathogen, will encounter diverse host environments and thus require coordinately controlling its transcriptional responses to these changes. This work was aimed at better understanding the role of two component signal transduction systems (TCS) in GBS pathophysiology through a systematic screening procedure. We first performed a complete inventory and sensory mechanism classification of all putative GBS TCS by genomic analysis. Five TCS were further investigated by the generation of knock-out strains from WT strain CJB111, and in vitro transcriptome analysis identified genes regulated by these systems.

2014-06-03 | E-MTAB-2423 | biostudies-arrayexpress

Phylogenetic footprinting and transcriptome profiling reveal new roles for two Bacillus cereus two-component systems

Project description:Members of the Bacillus cereus group can adapt to a wide range of environmental challenges. In bacteria, these challenges are often translated into a transcriptional response via the cognate response regulators (RRs) of specialized two-component systems (TCSs). We have previously developed a phylogenetic footprinting approach that was successfully implemented to predict specific binding sites (operators) and target genes for the RRs of B. cereus and related species. In this study, this footprinting approach was integrated with transcriptome analyses of two B. cereus TCS deletion mutants, involving the TCSs YvrHG and YufLM. Comparison of mutant versus wild-type transcriptomes revealed that the respective TCSs were significantly active during the exponential growth phase in rich medium and that the footprinting-based predictions were accurate for the two TCSs. Moreover, the predicted specific operators were used in combination with the transcriptome data to guide the identification of more extended TCS regulons. This revealed new roles for the respective TCSs, including the participation in an intricate transcriptional network involved in antibiotic resistance, including the confirmed resistance to oxolinic acid (YvrHG) and the confirmed uptake and metabolism of fumarate and the repression of fermentative pathways (YufLM).

2014-12-31 | GSE18523 | GEO

Two-component signal transduction systems in Streptomyces and related organisms

Project description:Two-component signal transduction systems in Streptomyces and related organisms

| PRJNA110647 | ENA

Effect of different Two-component systems system deletion in S. aureus NCTC8325

Project description:To analyze function of three Two-component systems SAOUHSC_00184-185, SAOUHSC_01313-1314, and SAOUHSC_01980-1981, we have employed whole genome microarray expression profiling to identify genes transcription changed in respective mutant strains. Target TCSs were replaced by ermB gene.

2013-09-30 | GSE51197 | GEO

Effect of different Two-component systems system deletion in S. aureus NCTC8325

2013-09-30 | E-GEOD-51197 | biostudies-arrayexpress