Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

High-throughput Fitness Experiments Reveal Specific Vulnerabilities of Human-Adapted Salmonella During Stress and Infection- Barseq3 (LB, ceftriaxone, ciprofloxacin, azithromycin)

ABSTRACT: High-throughput Fitness Experiments Reveal Specific Vulnerabilities of Human-Adapted Salmonella During Stress and Infection- Barseq3 (LB, ceftriaxone, ciprofloxacin, azithromycin)

PROVIDER: PRJNA1088554 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR28361137_1.fastq.gz	Fastqsanger.gz
	SRR28361137_2.fastq.gz	Fastqsanger.gz
	SRR28361138_1.fastq.gz	Fastqsanger.gz
	SRR28361138_2.fastq.gz	Fastqsanger.gz
	SRR28361139_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 80

Similar Datasets

High-throughput Fitness Experiments Reveal Specific Vulnerabilities of Human-Adapted Salmonella During Stress and Infection- Barseq3 (LB, ceftriaxone, ciprofloxacin, azithromycin)

Project description:Salmonella enterica is comprised of genetically distinct “serovars”, that together provide an intriguing model for exploring the genetic basis of pathogen evolution. While the genomes of numerous Salmonella isolates with broad variations in host range and human disease manifestations have been sequenced, the functional links between genetic and phenotypic differences among these serovars remain poorly understood. Here, we conduct high-throughput functional genomics on both generalist (Typhimurium) and human-restricted (Typhi & Paratyphi A) Salmonella at unprecedented scale in the study of this enteric pathogen. Using a comprehensive systems biology approach, we identify gene networks with serovar-specific fitness effects across 25 host-associated stresses encountered at key stages of human infection. By experimentally perturbing these networks, we characterize previously undescribed pseudogenes in human-adapted Salmonella. Overall, this work highlights specific vulnerabilities encoded within human-restricted Salmonella that are linked to the degradation of their genomes, shedding light into the evolution of this enteric pathogen.

2024-04-12 | GSE261757 | GEO

Salmonella enteritidis ciprofloxacin resistance effect on transcription in LB

Project description:comparison of total RNA profiles obtained from ciprofloxacin resistant colonies of two separate Enteritidis isolates with their respective wt parents total RNA of both wt (with reduced cip sensitivity at MIC=0.2 ug/ml) and spontaneous cipR mutants (MIC>32ug/ml) in LB log phase was harvested from Enteritidis strain 104 (from poultry host) and Enteritidis 5408 (from human host), and compared on a PCR product array

2010-06-25 | E-GEOD-15024 | biostudies-arrayexpress

Gene expression data from Pseudomonas aeruginosa PAO1 and mutator (Δ mutS) evolved for 940 generations in LB with and without sub-inhibitory concentrations of ciprofloxacin (0.05µg/ml)

2016-02-25 | GSE78255 | GEO

Salmonella enteritidis ciprofloxacin resistance effect on transcription in LB

Project description:comparison of total RNA profiles obtained from ciprofloxacin resistant colonies of two separate Enteritidis isolates with their respective wt parents

2009-03-06 | GSE15024 | GEO

Gene expression data from Pseudomonas aeruginosa PAO1 and mutator (Î? mutS) evolved for 940 generations in LB with and without sub-inhibitory concentrations of ciprofloxacin (0.05Âµg/ml)

Project description:Gene expression of P. aerruginosa changes after short-term exposure to ciprofloxacin at sub-inhibitory concentrations but the effect of long-term exposure which select for the most fitted subpopulations is not known. We used microarrays to investigate the changes in gene expression of P.aeruginosa PAO1 and mutator (Î? mutS) after long-term evolution (94 daily passages) in LB in the presence and absence of ciprofloxacin Three different colonies from the ancestral populations of PAO1 and mutator (Î? mutS) as well as from the evolved populations (day 94) of each of the three lineages (A;B;C) in the presence or absence of ciprofloxacin at a concentration of 0.05 Âµg/ml were used for overnight cultures in LB and total RNA was extracted at OD600nm=1 and hybridized on P. aeruginosa Affymetrix chip.

2016-02-25 | E-GEOD-78255 | biostudies-arrayexpress

Effect of ceftriaxone treatment on gene expression of MYCN-amplified RB170

Project description:To study the gene expression response of RB170 to ceftriaxone treatment. We performed gene expression profiling analysis using data obtained from RNA-seq of 3 different ceftriaxone concentration cells at two days of treatment.

2023-11-22 | GSE240841 | GEO

Experimental evolution of Neisseria gonorrhoeae under ceftriaxone and sub‑MIC azithromycin pressure

Project description:Short-term experimental evolution of Neisseria gonorrhoeae reveals divergent hypermutation and synergy‑constrained responses to dual ceftriaxone–azithromycin selection

| PRJEB110521 | ENA

Pseudomonas sp. LB strain:LB | isolate:LB

Project description:Pseudomonas sp. LB strain:LB | isolate:LB Genome sequencing

| PRJNA1474848 | ENA

Expression profiling of E. coli in three media treated with antibiotics

Project description:RNA sequencing was performed on E. coli K12 MG1655 on three media (M9, CA-MHB, R10LB) treated with four antibiotics (Ciprofloxacin, Trimethoprim-sulfamethoxazole, Ceftriaxone, Meropenem) at their media-specific MIC90s

2021-08-05 | GSE159494 | GEO

Comparison of Azithromycin treated and non-treated human lung fibroblasts

Project description:Azithromycin has been shown to have anti-fibrotic effects on idiopathic lung fibroblasts (IPF). We thus wanted to investigate involved genes and pathways by microarray analysis. We treated normal human lung fibroblasts with Azithromycin (50uM) for 24h and compared them to non-treated samples.

2019-11-07 | E-MTAB-8488 | 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