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Evaluation of FTIR oubtreak detecion for ESBL-Kp

ABSTRACT: Evaluation of FTIR oubtreak detecion for ESBL-Kp

PROVIDER: PRJEB51676 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR9301340_1.fastq.gz	Fastqsanger.gz
	ERR9301340_2.fastq.gz	Fastqsanger.gz
	ERR9301350_1.fastq.gz	Fastqsanger.gz
	ERR9301350_2.fastq.gz	Fastqsanger.gz
	ERR9301360_1.fastq.gz	Fastqsanger.gz

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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

Shotgun Proteomic Analysis of ESBL and non ESBL Producing Klebsiella Pneumoniae Clinical Isolates

Project description:Shotgun Proteomic Analysis of ESBL and non ESBL Producing Klebsiella Pneumoniae Clinical Isolates

2021-04-16 | PXD011693 | Pride

Shotgun Proteomic Analysis of ESBL and non ESBL Producing Klebsiella Pneumoniae Clinical Isolates

Project description:Shotgun Proteomic Analysis of ESBL and non ESBL Producing Klebsiella Pneumoniae Clinical Isolates

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Evaluation of FTIR oubtreak detecion for VREfm

Project description:Evaluation of FTIR oubtreak detecion for VREfm

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RNAseq to compare chemokine expression profiles in KP line vs total KP lung tumors tissues

Project description:To investigate the chemokines expressed by the KP cancer line and to compare it to chemokines expressed in lung tissues upon inoculation of KP tumor cells

2022-04-07 | GSE200126 | GEO

Transcriptional alterations of virulence-associated genes in extended spectrum beta-lactamase (ESBL)-producing uropathogenic Escherichia coli during morphologic transitions induced by ineffective antibiotics

Project description:The present study examines changes in global gene expression patterns and in virulence factor-associated genes in an extended spectrum beta-lactamase (ESBL)-producing UPEC (ESBL019) during the morphologic transitions induced by an ineffective antibiotic and in the presence of human primary bladder epithelial cells. The morphological shifts induced by ineffective antibiotics are associated with significant transcriptional virulence alterations in ESBL-producing UPEC, which may affect survival and persistence in the urinary tract.

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Bracteacoccus sp. KP-13A cultivar:KP-13A

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Proteomic perturbations of extended spectrum beta-lactamase producing Klebsiella pneumoniae by using LC MS/MS

Project description:A comprehensive analysis of proteome changes in ESBL-KP cells in response to the sub-MIC doses of antibiotics was performed by using label-free quantitative mass spectrometry.

2017-12-11 | PXD005587 | Pride

Expression data from KP and KPY murine sarcoma tumors

Project description:YAP depletion in the KP tumor system results in smaller tumors and delayed tumor latency. We used microarrays to investigate changes in global gene expression due to YAP1 loss in KP tumors

2018-03-01 | GSE109920 | GEO

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