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Escherichia coli strain:UPEC

ABSTRACT: Escherichia coli strain:UPEC Genome sequencing and assembly

PROVIDER: PRJNA606697 | ENA |

REPOSITORIES: ENA

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			Action	DRS
		Other
	JAAIVA01.dat.gz	Other
	JAAIVA01.fasta.gz	Fasta.gz
	JAAIVA01.master.dat	Other

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Nitrosative stress response in uropathogenic Escherichia coli (UPEC)

Project description:A strain of UPEC CFT073 lacking the three known NO detoxifiaction mechanisms, Hmp, FlRd and Nrf is used to study the global effect of NO on the pathogen

2015-06-15 | GSE69830 | GEO

sRNA-mediated regulation of P-fimbriae phase variation in intracellular uropathogenic Escherichia coli

Project description:The experiment design involves RNA-seq of Hfq bound RNA co-immunoprecipitation in the uropathogenic Escherichia coli (UPEC) strain UTI89.

2016-05-31 | E-MTAB-3498 | biostudies-arrayexpress

Cell wall-deficient Mycoplasma hominis represses biofilm formation of uropathogenic Escherichia coli.

Project description:The features of Mycoplasma in human organ such lung and urinary tract are enigmatic. Here, the role of M. hominis in regard to biofilm formation of uropathogenic Escherichia coli (UPEC) strain CFT073 was investigated. Although M. hominis were inferred to not impact on UPEC bacterial fitness including growth and productions of signaling molecules as autoinducer-2 (AI-2) and indole, we found that the presence of M. hominis dramatically decreased biofilm formation of UPEC CFT073 as well as slightly repressed attachment and cytotoxicity of that. Importantly, this activity was observed on UPEC strain specifically, not enterohemorrhagic E. coli (EHEC) strain that exists on intestine. Whole-transcriptome profiling and quantitative real-time polymerase chain reaction (qRT-PCR) analysis revealed PhoPQ system and anti-termination protein (encoded by ybcQ) participates on the reduction of biofilm formation by M. hominis (corroborated by qRT-PCR). Furthermore, collaborating with previous report that toxin-antitoxin (TA) system involved in biofilm formation, M. hominis increased on the transcriptions of toxin genes including hha (toxin gene in Hha-TomB TA system) and pasT (toxin part in PasT-PasI TA system). Hence, we propose that one possible role of M. hominis is to influence bacterial biofilm formation in urinary tract. Only fourteen genes were induced (2.5-fold) by the presence of M. hominis in Uropathogenic Escherichia coli (UPEC) biofilm cells. Among upregulated genes, ybcQ (encodes anti-termination protein Q homolog) and phoP/phoQ (encode DNA-binding response regulators in two-component regulatory system), were induced by the presence of M. hominis.

2016-01-08 | GSE43376 | GEO

Cell wall-deficient Mycoplasma hominis represses biofilm formation of uropathogenic Escherichia coli.

2016-01-08 | E-GEOD-43376 | biostudies-arrayexpress

Nitrosative stress response in uropathogenic Escherichia coli (UPEC)

Project description:A strain of UPEC CFT073 lacking the three known NO detoxifiaction mechanisms, Hmp, FlRd and Nrf is used to study the global effect of NO on the pathogen Cultures were anaerobically grown in triplicates under two conditions: Without nitrosative stress or with nitrosative stress, induced by anaerobic growth on nitrate. RNA was extracted from the samples and following rRNA depletion, samples were analyzed by RNA-seq for genome wide transcriptional differences.

2015-06-15 | E-GEOD-69830 | biostudies-arrayexpress

High-throughput Solexa sequencing of total RNA from Escherichia coli wild type and ∆fnr strain (PK4854)

Project description:Investigation of whole genome gene expression level changes in a Escherichia coli MG1655 K-12 ∆fnr mutant, compared to the wild-type strain. The mutations engineered into this strain produce a strain lacking the FNR protein.

2013-06-20 | GSE41190 | GEO

DamX controls reversible cell morphology-switching in uropathogenic Escherichia coli.

Project description:Transcriptional analysis of UTI89 - uropathogenic E.coli (UPEC) strain grown in urine/Luria bertani medium culture in vitro as well as during three distinct phases of UPEC bladder infection: intracellular growth, filament formation and filament reversal. UTI89 was used to infect a bladder epithelial cell line cultured within a dynamic flow chamber system and harvested at particular stages of its pathogenecity cascade. Total RNA was processed and cy3 labeled for microarray analysis using Agilent custom Escherichia coli UTI89 arrays designed using E-Array.

2017-05-28 | E-MTAB-3611 | biostudies-arrayexpress

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