Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Genetic characterization of Escherichia coli isolates that caused invasive urinary tract infections

PROVIDER: PRJNA976817 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR24751100_1.fastq.gz	Fastqsanger.gz
	SRR24751100_2.fastq.gz	Fastqsanger.gz
	SRR24751101_1.fastq.gz	Fastqsanger.gz
	SRR24751101_2.fastq.gz	Fastqsanger.gz
	SRR24751102_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 248

Similar Datasets

Gene expression of Uropathogenic Escherichia coli (UPEC) from different clinical categories of complicated urinary tract infection and Escherichia coli from asymptomatic bacteriuria

Project description:Escherichia coli is the predominant agent causing both different disease categories of complicated urinary tract infections (UTIs) and asymptomatic bacteriuria (ASB) cases. This study employed microarray analysis to identify the differences and similarities in the expression of genes among the Uropathogenic Escherichia coli (UPEC) and two ASB E.coli isolates that represent different end continuums of its disease severities.

2026-07-31 | GSE300748 | GEO

Analysis of proteins highly expressed by uropathogenic escherichia coli using urinary tract infection mouse model.

Project description:Proteins highly expressed by urophathogenic escherichia coli (UPEC) were analyzed by mass spectrometry of the bladder extract from mouse model of urinary tract infections.

2025-06-10 | PXD059767 | JPOST Repository

A Proteomic View of Escherichia coli Metabolic Features

Project description:Escherichia coli is an important human pathogen, among others a cause of severe diarrhea diseases and urinary tract infections. The ability to distinguish different pathogenic E. coli subspecies is crucial for correct treatment of the infection. Characterization and quantification of clinical isolates proteomes can provide details of the organisms’ metabolism and specific virulence factors. We performed a systematic quantitative proteomic analysis on a representative selection of 16 pathogenic and 2 commensal E. coli strains, together with 5 pathogenic Shigella strains. The analysis yielded a dataset of more than 4 thousand proteins, with an average of 2 thousand proteins per strain and 980 proteins common to all strains. Statistical comparison of label-free quantitative levels of 750 proteins, which were quantified in all strains, revealed that levels of a majority of the shared proteins vary substantially among specific strains. Theses quantitative protein profiles clearly distinguished E. coli strains from Shigella and largely separated commensal E. coli strains from intestinal and extraintestinal E. coli isolates.

2020-10-19 | PXD005760 | Pride

Loss of O-Antigen Due to wbbL Mutations is Common and Associated with Increased Mortality in Escherichia coli Bloodstream Infections

Project description:Escherichia coli bloodstream infections are common and associated with high mortality. A key feature of E. coli is the lipopolysaccharide (LPS) O-antigen, which contributes to immune evasion during invasive infection. We analyzed serial E. coli isolates from patients with relapsed bacteremia and identified frequent disruption of O-antigen synthesis due to mutations in wbbL, resulting in a rough LPS (R-LPS) phenotype. E. coli with rough LPS isolates were more serum sensitive and less pathogenic in mice. Despite this apparent attenuation, 11 of 66 (18%) E. coli sequence type 131 bloodstream isolates in our cohort lacked O-antigen and were associated with significantly worse clinical outcomes, including septic shock and mortality. Using a recurrent bacteremia model, we show that R-LPS isolates partially evade protective immunity generated against smooth-LPS E. coli, highlighting the importance of host immune context in invasive disease.

2026-05-18 | GSE319702 | GEO

Carter2025 - Trimethoprim induced metabolic perturbations and counteractions

Project description:Trimethoprim is a clinically important antibiotic for treating urinary tract infections yet its mechanism of killing remains elusive due to a cascade of effected metabolic reactions. Metabolites available in growth media can selectively counteract trimethoprim which affects the interpretation of results. We sought to understand the full scope of trimethoprim’s impact on Escherichia coli metabolism and how metabolite availability affects trimethoprim outcomes. We applied flux balance analysis on a genome-scale metabolic model of E. coli to simulate trimethoprim activity under bacteriostatic and bactericidal conditions.

2026-03-11 | MODEL2507240001 | BioModels

Project description:Escherichia coli ST38 isolates from human patients with urinary tract infections.

| PRJEB52832 | ENA

The distinct transcriptome of virulence-associated phylogenetic group B2 Escherichia coli

Project description:Strains of urinary tract associated E. coli both recent isolates and from the ECOR collection and non pathogenic E. coli strains were analyzed. Replicates were performed to establish the reproduciblity, then single experiments were performed there on.

2023-07-27 | GSE235964 | GEO

TosR-mediated regulation of adhesins and biofilm formation in uropathogenic Escherichia coli

Project description:Uropathogenic Escherichia coli utilize a variety of adherence factors that assist in colonization of the host urinary tract. TosA (type one secretion) is a non-fimbrial adhesin that is predominately expressed during murine urinary tract infection (UTI), binds to kidney epithelial cells, and promotes survival during invasive infections. The tosRCBDAEF operon encodes the secretory machinery necessary for TosA localization to the E. coli cell surface, as well as the transcriptional regulator TosR. TosR binds upstream of the tos operon and, in a concentration dependent manner, either induces or represses tosA expression. TosR is a member of the PapB family of fimbrial regulators that can participate in crosstalk between fimbrial operons. TosR also binds upstream of the pap operon and suppresses PapA production. However, the scope of TosR-mediated crosstalk is understudied and may be underestimated. To quantify the global effects of TosR-mediated regulation on the E. coli CFT073 genome, we induced expression of tosR, collected mRNA, and performed RNA-Seq. These findings show that production of TosR affected the expression of genes involved with adhesins, including P, F1C, and Auf; nitrate/nitrite transport; microcin secretion; and promoted biofilm formation.

2018-04-27 | GSE112878 | GEO

CC131 in complicated urinary tract infections (cUTIs) caused by fluoroquinolone-resistant Escherichia coli

Project description:CC131 in complicated urinary tract infections (cUTIs) caused by fluoroquinolone-resistant Escherichia coli

| PRJEB55220 | ENA

Transcriptional responses of uropathogenic E. coli to stresses caused by sodium chloride or urea.

Project description:E. coli which cause urinary tract infections must respond to high osmolarity in the urinary tract as well as the presence of urea. We used microarrays to measure the differntial gene expression of uropathogenic strain CFT073 in conditions of high osmolarity of urea v. minimal media

2012-04-05 | GSE28399 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data