Transcriptomics

Dataset Information

7

Transcription profiling of Pseuodomonas aeruginosa cystic fibrosis (CF) isolates


ABSTRACT: To provide a more detailed survey of adaptive changes in the physiology of P. aeruginosa (PA) during long-term infection of the cystic fibrosis (CF) lung, we performed a comparative proteome and transcriptome analysis of a set of isogenic sequential non-mutator and mutator isolates from three selected CF patients. Recently, we showed that during CF lung persistence PA mutators converge to a virulence-attenuated phenotype. In this study, we demonstrate that besides virulence-associated traits (VATs) the adaptation process of PA predominantly comprises metabolic pathways. In end-stage mutator strains, transcripts of genes encoding VATs, chemotaxis, degradation of aromatic compounds and several two-component regulatory systems were decreased. In contrast, several transcripts of genes or proteins involved in metabolism of fatty acids, nucleotides, amino acids and the generation of energy were increased. Of particular interest is the increased expression level of genes involved in (i) the anaerobic arginine-deiminase pathway, (ii) the anaerobic respiration such as nitrate-uptake protein OprF, redox-active azurin and cytchrome c551 peroxidase, (iii) the micro-aerobic respiration such as high oxygen-affinity cytochrome oxidase cbb3 (iv) the tricarboxylic acid cycle (TCA), glyoxylate shunt and anaplerotic carboxylation reactions to oxaloacetate. Strikingly, an increased transcription of the anaerobic regulator gene anr correlates with the up-regulation of ANR-dependent genes. In conclusion, these changes in transcriptome and proteome indicate an adaptive shift towards constitutive expression of genes of metabolic pathways obviously required for growth under micro-aerobic and nutritional conditions of suppurative CF lung tissue. Finally, these results provide us with new targets for antimicrobial agents and biomarkers reflecting adaptation of PA towards progressive CF lung disease. Experiment Overall Design: P. aeruginosa isolates recovered from different time points of chronic cystic fibrosis lung disease were cultered in vitro, harvested for RNA extraction and hybridization on Affymetrix microarrays. We compared the transcriptome (triplicate microarrays) of early non-mutator P. aeruginosa isolates with late mutator isolates with high mutation frequency probably the driving force of an efficient adaptation to changing environements to conclude from differences in gene expression to the requirements of CF lung environment. Experiment Overall Design: Second publication of array data to be added later

INSTRUMENT(S): 418 [Affymetrix]

ORGANISM(S): Pseudomonas aeruginosa  

SUBMITTER: michael Hogardt  

PROVIDER: E-GEOD-10362 | ArrayExpress | 2009-06-08

SECONDARY ACCESSION(S): GSE10362PRJNA105623

REPOSITORIES: GEO, ArrayExpress

altmetric image

Publications

Stage-specific adaptation of hypermutable Pseudomonas aeruginosa isolates during chronic pulmonary infection in patients with cystic fibrosis.

Hogardt Michael M   Hoboth Christina C   Schmoldt Sabine S   Henke Christine C   Bader Lutz L   Heesemann Jürgen J  

The Journal of infectious diseases 20061122 1


BACKGROUND: Pseudomonas aeruginosa (PA) strains with defective DNA mismatch repair genes generate numerous bacterial variants because of high mutation rates. In cystic fibrosis (CF), such mutator strains may lead to the rapid selection of survivors that are specifically adapted to the hostile environment of the inflamed CF lung. METHODS: Genotypes and phenotypes of 111 PA variants descending from 3 distinct mutator strains obtained from 3 patients with CF were systematically characterized. RESUL  ...[more]

Similar Datasets

| GSE10362 | GEO
| GSE25481 | GEO
| GSE6122 | GEO
| GSE10304 | GEO
2010-11-04 | E-GEOD-25130 | ArrayExpress
2011-10-31 | E-GEOD-25481 | ArrayExpress
2011-12-31 | E-GEOD-33275 | ArrayExpress
2011-07-16 | GSE28152 | GEO
2007-12-22 | GSE5560 | GEO
2011-07-15 | E-GEOD-28152 | ArrayExpress