The Pseudomonas aeruginosa Transcriptional Landscape Is Shaped by Environmental Heterogeneity and Genetic Variation

  title={The Pseudomonas aeruginosa Transcriptional Landscape Is Shaped by Environmental Heterogeneity and Genetic Variation},
  author={Andreas D{\"o}tsch and Monika Schniederjans and Ariane Khaledi and Klaus Hornischer and Sebastian Schulz and Agata Bielecka and Denitsa Eckweiler and Sarah Pohl and Susanne H{\"a}ussler},
ABSTRACT Phenotypic variability among bacteria depends on gene expression in response to different environments, and it also reflects differences in genomic structure. In this study, we analyzed transcriptome sequencing (RNA-seq) profiles of 151 Pseudomonas aeruginosa clinical isolates under standard laboratory conditions and of one P. aeruginosa type strain under 14 different environmental conditions. Our approach allowed dissection of the impact of the genetic background versus environmental… 

Single-Nucleotide Polymorphism-Based Genetic Diversity Analysis of Clinical Pseudomonas aeruginosa Isolates

Although the results demonstrate that the Pseudomonas aeruginosa core genome is highly conserved and in general, not subject to adaptive evolution, instances of parallel evolution will provide an opportunity to uncover genetic changes that underlie phenotypic diversity.

Parallel evolutionary paths to produce more than one Pseudomonas aeruginosa biofilm phenotype

Watching biofilm forming capabilities, motility, and virulence phenotypes of a plethora of phylogenetically diverse clinical isolates of the opportunistic pathogen Pseudomonas aeruginosa provides insights into distinct ways to make a biofilm and indicates that genetic adaptations can modulate multiple pathways for biofilm development that are followed by several independent clinical isolate.

The Core Proteome of Biofilm-Grown Clinical Pseudomonas aeruginosa Isolates

Analysis of the proteome profiles across the 27 clinical isolates grown under planktonic and biofilm growth conditions led to the identification of a core biofilm-associated protein profile, and it was found that protein-to-mRNA ratios between different P. aeruginosa strains are well correlated, indicating conserved patterns of post-transcriptional regulation.

There is no hiding if you Seq: recent breakthroughs in Pseudomonas aeruginosa research revealed by genomic and transcriptomic next-generation sequencing.

This review outlines some of the latest developments and applications of next-generation sequencing techniques that have used primarily Pseudomonas aeruginosa as a model system and focuses particularly on insights into pseudomonas virulence and infection that have been gained from these approaches.

Integrated analysis of population genomics, transcriptomics and virulence provides novel insights into Streptococcus pyogenes pathogenesis

Genome-wide association study, expression quantitative trait loci analysis, machine learning, and isogenic mutant strains identified and confirmed a one-nucleotide indel in an intergenic region that significantly alters global transcript profiles and ultimately virulence.

Transcriptional and Mutational Profiling of an Aminoglycoside-Resistant Pseudomonas aeruginosa Small-Colony Variant

Combinatorial influences of two- component systems on clinically relevant phenotypes such as resistance and the expression of the SCV phenotype are uncovered and clearly demonstrate that the combined activation of P. aeruginosa two-component systems has pleiotropic effects with unforeseen consequences.

Environment‐driven changes of mRNA and protein levels in Pseudomonas aeruginosa

This study described the Pseudomonas aeruginosa PA14 proteomic landscape and quantified environment-driven changes in protein levels by the use of LC-MS techniques and developed a Random Forest-based predictor for protein levels and found that the mRNA to protein correlation was higher for genes/proteins that undergo dynamic changes.

Genetically diverse Pseudomonas aeruginosa populations display similar transcriptomic profiles in a cystic fibrosis explanted lung

It is found that, despite genetic variation, the ex vivo transcriptional profiles of P. aeruginosa populations are similar across five different areas in an explanted CF lung, indicating that there may be a common in vitro transcriptional profile in the CF lung environment.

Convergent Metabolic Specialization through Distinct Evolutionary Paths in Pseudomonas aeruginosa

This work investigated how and through which trajectories evolution of Pseudomonas aeruginosa occurs when migrating from the environment to the airways of CF patients, and determined reduction of growth rate and metabolic specialization as signatures of adaptive evolution.

Evolutionary highways to persistent infection by Pseudomonas aeruginosa

The development of persistent infection over 10 years is mapped by screening 8 infection-relevant phenotypes of 443 longitudinal Pseudomonas aeruginosa isolates from 39 young cystic fibrosis patients to underline the environmental influences affecting evolution of complex natural populations.



Pseudomonas genomes: diverse and adaptable.

Members of the genus Pseudomonas inhabit a wide variety of environments, which is reflected in their versatile metabolic capacity and broad potential for adaptation to fluctuating environmental

Evolutionary conservation of essential and highly expressed genes in Pseudomonas aeruginosa

BackgroundThe constant increase in development and spread of bacterial resistance to antibiotics poses a serious threat to human health. New sequencing technologies are now on the horizon that will

Evolutionary remodeling of global regulatory networks during long-term bacterial adaptation to human hosts

The results suggest that adaptation to a highly selective environment, such as the CF airways, is a highly dynamic and complex process, which involves continuous optimization of existing regulatory networks to match the fluctuations in the environment.

Genomic analysis reveals that Pseudomonas aeruginosa virulence is combinatorial

It is proposed that virulence in this organism is both multifactorial and combinatorial, the result of a pool of pathogenicity-related genes that interact in various combinations in different genetic backgrounds.

Whole-Genome Sequence Variation among Multiple Isolates of Pseudomonas aeruginosa

It is concluded that most of the PAO1 genome represents a core P. aeruginosa backbone sequence while the strains addressed in this study possess additional genetic material that accounts for at least 10% of their genomes, and approximately half of these additional sequences are novel.

Dynamics of Pseudomonas aeruginosa genome evolution

The complete sequence and comparative analysis of the genomes of two representative P. aeruginosa strains isolated from cystic fibrosis patients whose genetic disorder predisposes them to infections by this pathogen suggest that niche adaptation is a major evolutionary force influencing the composition of bacterial genomes.

Population structure of Pseudomonas aeruginosa

The population genetics of P. aeruginosa was investigated by an approach that is generally applicable to the rapid, robust, and informative genotyping of bacteria and found the genome is made up of clone-typical segments in core and accessory genome and of blocks in the core with unrestricted gene flow in the population.

Pseudomonas aeruginosa Genomic Structure and Diversity

In summary, P. aeruginosa is endowed with a highly conserved core genome of low sequence diversity and a highly variable accessory genome that communicates with other pseudomonads and genera via horizontal gene transfer.

A dynamic and intricate regulatory network determines Pseudomonas aeruginosa virulence

A ‘birds-eye’ view of the regulatory cascades provides the forum opportunities to pose questions, formulate hypotheses and evaluate theories in elucidating P. aeruginosa pathogenesis, and some regulators have been identified that modulate multiple virulence mechanisms.

The Pseudomonas aeruginosa Transcriptome in Planktonic Cultures and Static Biofilms Using RNA Sequencing

This study reports the first transcriptome study on P. aeruginosa that employs RNA sequencing technology and provides insights into the quantitative and qualitative transcriptome including the expression of small RNAs in P. aircrafts biofilms.