Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: plasmids containing blaNDM-1 sequence in K.p.

PROVIDER: PRJNA596354 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR10738407_1.fastq.gz	Fastqsanger.gz
	SRR10738407_2.fastq.gz	Fastqsanger.gz
	SRR10738408_1.fastq.gz	Fastqsanger.gz
	SRR10738408_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 4 of 4

Similar Datasets

Characterization of plasmids mediating carbapenem resistance in Klebsiella pneumoniae in Pretoria, South Africa

Project description:The study aimed to characterize plasmids mediating carbepenem resistance in Klebsiella pneumoniae in Pretoria, South Africa. We analysed 56 K. pneumoniae isolates collected from academic hospital around Pretoria. Based on phenotypic and molecular results of these isolates, 6 representative isolates were chosen for further analysis using long reads sequencing platform. We observed multidrug resistant phenotype in all these isolates, including resistance to aminoglycosides, tetracycline, phenicol, fosfomycin, floroquinolones, and beta-lactams antibiotics. The blaOXA-48/181 and blaNDM-1/7 were manily the plasmid-mediated carbapenemases responsible for carbapenem resistance in the K. pneumoniae isolates in these academic hospitals. These carbapenemase genes were mainly associated with plasmid replicon groups IncF, IncL/M, IncA/C, and IncX3. This study showed plasmid-mediated carbapenemase spread of blaOXA and blaNDM genes mediated by conjugative plasmids in Pretoria hospitals.

2019-10-17 | GSE138949 | GEO

Promoter context-specific positive and negative transcriptional regulation of Glucocorticoid Receptor target genes by coregulator G9a

2012-11-02 | GSE35962 | GEO

Promoter context-specific positive and negative transcriptional regulation of Glucocorticoid Receptor target genes by coregulator GLP.

Project description:A549 lung cancer cells were not infected (NI), transfected by plasmids containing shGLP (sequence targeting GLP gene) or shNS (non-specific sequence). These cells were treated with dex to identify subsets of genes regulated by dex (hormone) and GLP (EHMT1). NI and shNS data were submitted on the GSE35962.

2017-06-13 | GSE94646 | GEO

Plasmids containing blaOXA-48

Project description:Plasmids containing blaOXA-48

| PRJEB88520 | ENA

Escherichia coli ARL10/167

Project description:Genetic surrounding of blaNDM-1, blaNDM-3 and blaNDM-6 and conjugation frequency of blaNDM-1-carrying plasmids in Enterobacteriaceae

| PRJNA194581 | ENA

CMY-II containing IncI pST12 plasmids

Project description:CMY-II containing IncI pST12 plasmids

| PRJEB38549 | ENA

Human stem cell and mouse transchromosomic (hsa11) embryonic stem cell (with and without ectopic ZNF91 expression) ChIP-seq

Project description:We compared the binding patterns in embryonic stem cells of KAP1 and KRAB Zinc Finger (KZNF) proteins as well as H3K4me3 DNA under several conditions. Native human stem cells. Mouse stem cells containing a transchromosomic copy of human chromosome 11, with and without the introduction of plasmids containing KRAB Zinc Finger sequences. We show that certain KZNFs are responsible for the repression of certain retrotransposons in embryonic stem cells, preventing their spread across the genome. ChIP-seq of HESCs and mouse TC11 ESCs with ZNF91 plasmids and with empty vector plasmids. ChIP of KAP1, ZNF486, H3K4me3. At least 2 replicates of each condition.

2014-09-29 | E-GEOD-60210 | biostudies-arrayexpress

Promoter context-specific positive and negative transcriptional regulation of Glucocorticoid Receptor target genes by coregulator G9a

Project description:A549 lung cancer cells were not infected (NI), transfected by plasmids containing shG9a (sequence targeting G9a gene) or shNS (non-specific sequence). These cells were treated with dex to identify subsets of genes regulated by dex (hormone) and G9a (EHMT2) Cells (NI/shNS/shG9a) were treated with 100nM dex for 24h and total RNA was extracted to identify differentially expressed genes

2012-11-02 | E-GEOD-35962 | biostudies-arrayexpress

Next-Generation Sequencing of sgRNA spacer sequences from a CRISPRi library screen of the Salmonella enterica serovar Typhimurium 14028s genome in response to repeated monoclonal IgA treatment

Project description:For this study, we implemented the anti-lipopolysaccharide monoclonal IgA Sal4 in a genome-wide CRISPR interference (CRISPRi) screen to identify genes that modulate the extent of agglutination of Salmonella enterica serovar Typhimurium (STm) in response to antibody exposure. We leveraged our recently-developed \"snow globe assay\" method to enrich for cells containing sgRNAs that silence the expression of genes that contribute to the process of antibody-mediated agglutination. A high density (~10^8 CFU/mL) culture of an STm strain containing a library of 36,651 sgRNA-encoded plasmids was treated with Sal4 IgA (15 μg/mL) in PBS for five hours at room temperature. The remaining portion of the culture present at the top of the supernatant after antibody treatment was passaged and grown overnight to repeat the enrichment the following day. We then purified the sgRNA-containing plasmids from this agglutinating-evading population using a DNA extraction kit, amplified the spacer sequence via PCR, purified the PCR products using AMPure magnetic beads, and pooled the resulting DNA for Next Generation Sequencing. The files included here represent the raw .fastq files obtained from the Illumina NextSeq platform. For more information of this study, please see https://doi.org/10.1101/2024.12.16.628777.

2025-02-16 | E-MTAB-14834 | biostudies-arrayexpress

Transcription Termination and Antitermination of Bacterial CRISPR Arrays

Project description:V. cholerae A50 has a functional CRISPR-cas system with a conserved boxA sequence. Plasmids harboring protospacers that are perfect targets for each spacer of the array are introduced into wt and boxA mutant V. cholerae. After a period of growth without selection, cells are collected and the protospacer plasmids are sequenced in a high throughput manner.

2020-10-08 | E-MTAB-9631 | biostudies-arrayexpress

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