Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Enterobacteriaceae

ABSTRACT: Whole-genome sequence of mutant strains analysis by carbapenem exposure.

PROVIDER: PRJDB13001 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other
	DRR345527_1.fastq.gz	Fastqsanger.gz
	DRR345527_2.fastq.gz	Fastqsanger.gz
	DRR345528_1.fastq.gz	Fastqsanger.gz
	DRR345528_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 13

Similar Datasets

Comprehensive Assessment of Initial Adaptation of ESBL Positive ST131 E. coli to Carbapenem Exposure

Project description:Background: It remains unclear how high-risk Escherichia coli lineages, like sequence type (ST) 131, initially adapt to carbapenem exposure in its progression to becoming carbapenem resistant. Methods: Carbapenem mutation frequency was measured in multiple subclades of extended-spectrum β-lactamase (ESBL) positive ST131 clinical isolates using a fluctuation assay followed by whole genome sequencing (WGS) characterization. Genomic, transcriptomic, and porin analyses of ST131 C2/H30Rx isolate, MB1860, under prolonged, increasing carbapenem exposure was performed using two distinct experimental evolutionary platforms to measure fast vs. slow adaptation. Results: All thirteen ESBL positive ST131 strains selected from a diverse (n=184) ST131 bacteremia cohort had detectable ertapenem (ETP) mutational frequencies with a statistically positive correlation between initial ESBL gene copy number and mutation frequency (r = 0.87, P<1e-5). WGS analysis of mutants showed initial response to ETP exposure resulted in significant increases in ESBL gene copy numbers or mutations in outer membrane porin (Omp) encoding genes in the absence of ESBL gene amplification with subclade specific adaptations. In both experimental evolutionary platforms, MB1860 responded to initial ETP exposure by increasing blaCTX-M-15 copy numbers via modular, insertion sequence 26 (IS26) mediated pseudocompound transposons (PCTns). Transposase activity driven by PCTn upregulation was a conserved expression signal in both experimental evolutionary platforms. Stable mutations in Omp encoding genes were detected only after prolonged increasing carbapenem exposure consistent with clinical observations. Conclusions: ESBL gene amplification is a conserved response to initial carbapenem exposure, especially within the high-risk ST131 C2 subclade. Targeting such amplification could assist with mitigating carbapenem resistance development.

2024-08-04 | GSE273456 | GEO

Enterobacteriaceae

Project description:Carbapenem-resistant strains surveillance

| PRJNA841267 | ENA

Enterobacteriaceae

Project description:Whole-genome sequencing of carbapenem-resistant Enterobacteriaceae

| PRJDB4867 | ENA

Enterobacteriaceae

Project description:Whole-genome sequencing analysis of carbapenem-resistant Enterobacteriaceae isolated from retail foods in Dhaka, Bangladesh

| PRJDB15848 | ENA

Enterobacteriaceae

Project description:Whole genome sequencing of carbapenem-resistant Enterobacteriaceae isolated in Thailand

| PRJDB5929 | ENA

Enterobacteriaceae

Project description:Whole genome sequencing of carbapenem-resistant Enterobacteriaceae isolated in Myanmar

| PRJDB5126 | ENA

Enterobacteriaceae

Project description:Whole genome sequencing of carbapenem-resistant Enterobacteriaceae isolated in Vietnam

| PRJDB6655 | ENA

Enterobacteriaceae

Project description:Whole genome sequencing of carbapenem-resistant Enterobacterales isolated in Japan

| PRJDB7521 | ENA

Enterobacteriaceae

Project description:Whole genome sequencing of carbapenem-resistant Enterobacteriaceae isolated in Cambodia

| PRJDB6936 | ENA

Enterobacteriaceae

Project description:Whole genome sequencing of carbapenem-resistant Enterobacteriaceae isolated in Malawi, Africa.

| PRJDB9614 | ENA

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