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

@article{Dtsch2015ThePA,
  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},
  journal={mBio},
  year={2015},
  volume={6}
}
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… 

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References

SHOWING 1-10 OF 53 REFERENCES

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.
...