Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Response of Pseudomonas aeruginosa laboratory strain PAO1 and clinical isolates LESlike1, LESB58, and LES431 to antibiotic treatments

ABSTRACT: Pseudomonas aeruginosa is a predominant pathogen in chronic lung infections in individuals with cystic fibrosis (CF). Epidemic strains of P. aeruginosa, such as the Liverpool Epidemic Strain (LES), are capable of transferring between CF patients and have been associated with increased hospital visits and antibiotic treatments. We used label-free quantitative proteomics to compare the laboratory strain PAO1, beta-lactam resistant isolate LESB58, and beta-lactam susceptible isolate LESlike1 and their responses to three beta-lactams (aztreonam, carbenicillin, piperacillin), the aminoglycoside tobramycin, and hydrogen peroxide. Across all samples, we identified 3019 proteins with a minimum of two peptides. We found that LESB58 showed a large response to treatment with the beta-lactam carbenicillin, with 644 proteins significantly increased in abundance and 590 proteins significantly decreased in abundance (Students t-test, p≤0.05, FDR=0.05, S0=1). Proteomic characterization of an additional beta-lactam resistant isolate, LES431, exposed to carbenicillin showed that this response was shared by both isolates. Part of the response to carbenicillin in LESB58 included an increase in abundance in proteins involved in cell wall synthesis and division.

INSTRUMENT(S): Orbitrap Fusion Lumos

ORGANISM(S): Pseudomonas Aeruginosa Les431 Pseudomonas Aeruginosa Lesb58 Pseudomonas Aeruginosa Leslike1 Pseudomonas Aeruginosa Pao1

SUBMITTER: Cezar Khursigara

LAB HEAD: Cezar Khursigara

PROVIDER: PXD034831 | Pride | 2023-08-23

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Similar Datasets

Label-free quantitative proteomics identifies unique proteomes of clinical isolates of the Liverpool Epidemic Strain of Pseudomonas aeruginosa and laboratory strain PAO1

Project description:Pseudomonas aeruginosa is a predominant pathogen in chronic lung infections in individuals with cystic fibrosis (CF). Epidemic strains of P. aeruginosa, such as the Liverpool Epidemic Strain (LES), are capable of transferring between CF patients and have been associated with increased hospital visits and antibiotic treatments. Comparative genomics and phenotypic assays have shown that antibiotic resistance profiles differ among LES isolates and that genotype–phenotype associations are difficult to establish for resistance phenotypes in clinical isolates of P. aeruginosa based on these comparisons alone. We compared two LES isolates, LESlike1 and LESB58, and the common laboratory strain P. aeruginosa PAO1 using label-free quantitative proteomics to more accurately predict functional differences between strains. The proteomes of the LES isolates were found to be more similar to each other than to PAO1. However, we also observed a number of differences in the abundance of proteins involved in quorum sensing, virulence, and antibiotic resistance, including in the comparison of LESlike1 and LESB58. Specifically, the proteomic data revealed a higher abundance of proteins involved in polymyxin and aminoglycoside resistance in LESlike1. Minimum inhibitory concentration assays confirmed that LESlike1 has higher resistance to antibiotics from these classes. These findings provide an example of the ability of proteomic data to complement genotypic and phenotypic studies to understand resistance in clinical isolates.

2022-05-09 | PXD025827 | Pride

PAO1-Lon-ciprofloxacin

Project description:Microarray experiments were preformed comparing the effect of sub-inhibitory concentrations of ciprofloxacin on five independent cultures of PAO1 and the PAO1 Lon mutant

2012-03-25 | E-MTAB-1000 | biostudies-arrayexpress

PAO1-1037

Project description:Gene expression in biofilms of PAO1 with and without the presence of 20 ug/ml peptide 1037 was analysed using microarrays.

2012-04-19 | E-MTAB-962 | biostudies-arrayexpress

Transcription profiling of P. aeruginosa PA01 grown with or without human LL37

Project description:Five biological repeats of P.aeruginosa PAO1 in the absence of human LL37 and five biological repeats of P.aeruginosa presence of LL37 were grown in mineral medium in continuous-culture flow cells. Microarray experiments were done using microarray slides and protocols from TIGR on cells harvested from the biofilms after 4 days of growth.

2008-10-25 | E-FPMI-12 | biostudies-arrayexpress

MBains PAO1 cprR (CP28)

Project description:Micoarrays were used to obtain gene expression in mid-log phase PAO1::cprR(PA3077) with the treatment of 12ug/ml CP28 vs mid-log phase PAO1 with the treatment of 12ug/ml CP28

2012-12-05 | E-MTAB-1276 | biostudies-arrayexpress

Transcription profiling of P.aeruginosa PAO1 and PAO1 phoQ::xylE

Project description:Five biological repeats of P.aeruginosa PAO1 and five biological repeats of P.aeruginosa PAO1 phoQ::xylE were grown in mineral medium BM2 using glucose as the carbon source and with 2mM MgSO4. Microarray experiments were done using microarray slides and protocols from TIGR on cells from mid-log phase.

2008-12-20 | E-FPMI-18 | biostudies-arrayexpress

Transcription profiling by array of Pseudomonas aeruginosa under phosphate deficient conditions

Project description:Phosphate is essential for all living organisms, participating in critical biochemical processes, being an essential component of the energy dynamics of cells and being a component of nucleic acids, phospholipids in membranes, and other biomolecules. Therefore, the ability to withstand conditions of phosphate starvation, making use of the available phosphate, is of great importance for cell survival. Microarrays were performed to study the transcriptional response of Pseudomonas aeruginosa under phosphate deficient conditions.

2012-12-01 | E-MTAB-1170 | biostudies-arrayexpress

Expression data from Pseudomonas aeruginosa PAO1 and its isogenic ampR mutant in the presence and absence of sub-MIC ß-lactam exposure.

Project description:The transcriptional regulator AmpR controls expression of the AmpC ß-lactamase in P. aeruginosa and other bacteria. Studies have demonstrated that in addition to regulating ampC expression, AmpR also regulates the expression of the sigma factor AlgT/U and the production of some quorum-sensing regulated virulence factors. In order to understand the ampR regulon, we compared the expression profiles of PAO1 and its isogenic ampR mutant, PAO∆ampR in the presence and absence of sub-MIC ß-lactam stress. The analysis demonstrates that the ampR regulon is much more extensive than previously thought, with the deletion of ampR affecting the expression of over 300 genes. Expression of an additional 207 genes are affected by AmpR when the cells are exposed to sub-MIC ß-lactam stress, indicating that the ampR regulon in P. aeruginosa is much more extensive than previously thought. An inframe deletion of ampR was generated in P. aeruginosa PAO1. The wild type and ampR mutant strains were grown to mid-log phase and subjected to sub-MIC ß-lactam exposure. Total RNA was isolated from 2-hour ß-lactam exposed and unexposed cells to monitor changes in gene expression arising due to loss of ampR in the presence and absence of ß-lactam exposure.

2012-03-29 | E-GEOD-33188 | biostudies-arrayexpress

Pseudomonas aeruginosa LC-MS/MS

Project description:Pseudomonas aeruginosa is a major cause of morbidity and mortality in patients with cystic fibrosis (CF). The P. aeruginosa CF isolate PASS4 has reduced ability to catabolise various carbon sources however can grow on DNA as a sole carbon source but, with a higher biomass production than P. aeruginosa burns wound, laboratory strain PAO1. Therefore, proteomic profiling of PASS4 and PAO1 was conducted following growth on DNA as a sole carbon source. To compare the protein expression of P. aeruginosa strains PAO1 and PASS4 following growth in DNA, the amino acid, asparagine was used a control condition, as asparagine was one of the amino acids PASS4 could utilise.

2019-06-24 | PXD006742 | Pride

Using RNA Seq to define the regulon of the Pseudomonas aeruginosa transcription factor Anr in low-oxygen colony biofilms.

Project description:Purpose : The goal of this study was to use RNA Seq to define the regulon of the transciption factor Anr by comparing global transcriptional profiles of Pseudomonas aeruginosa strain PAO1 and a clinical isolate with their isogenic ?anr mutants, grown in colony biofilms at 1% oxygen. Methods : mRNA profiles were generated for laboratory strain PAO1 and for a clinical isolate J215, as well as for ?anr derivatives of each strain, in duplicate, by deep sequencing. Strains were grown for 12 hours in colony biofilms at 1% O2, 5% CO2 prior to RNA harvest. Ribosomal and transfer RNAs were removed using the MICROBExpress kit (Life Technologies). mRNA reads were trimmed and mapped to the PAO1 NC_002516 reference genome from NCBI using the ClC Genomics Workbench platform and defaut parameters. mRNA profiles of 12 hour colony biofilms were generated for P. aeruginosa strains PAO1 WT, PAO1 ?anr, clinical isolate J215, and J215 ?anr, each in duplicate, by deep sequencing using Illumina HiSeq.

2015-06-29 | E-GEOD-68534 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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