Growth phase‐dependent expression of the Pseudomonas putida KT2440 transcriptional machinery analysed with a genome‐wide DNA microarray

L Yuste, AB Hervás, I Canosa, R Tobes… - Environmental …, 2006 - Wiley Online Library
Bacterial transcriptional networks are built on a hierarchy of regulators, on top of which lie
the components of the RNA polymerase (in particular the sigma factors) and the global …

Analysis of regulatory networks in Pseudomonas aeruginosa by genomewide transcriptional profiling

AL Goodman, S Lory - Current opinion in microbiology, 2004 - Elsevier
Transcriptional profiling using DNA microarrays has proved to be a valuable tool for
dissecting bacterial adaptation to various environments, including human hosts. Analysis of …

Global transcriptional responses to osmotic, oxidative, and imipenem stress conditions in Pseudomonas putida

K Bojanovič, I D'Arrigo, KS Long - Applied and environmental …, 2017 - Am Soc Microbiol
Bacteria cope with and adapt to stress by modulating gene expression in response to
specific environmental cues. In this study, the transcriptional response of Pseudomonas …

Machine-learning from Pseudomonas putida KT2440 transcriptomes reveals its transcriptional regulatory network

HG Lim, K Rychel, AV Sastry, GJ Bentley, J Mueller… - Metabolic …, 2022 - Elsevier
Bacterial gene expression is orchestrated by numerous transcription factors (TFs).
Elucidating how gene expression is regulated is fundamental to understanding bacterial …

Genetic Evidence of Distinct Physiological Regulation Mechanisms in the ς54Pu Promoter ofPseudomonas putida

I Cases, V de Lorenzo - Journal of Bacteriology, 2000 - Am Soc Microbiol
The activity of the toluene-responsive ς54 Pu promoter of the pWW0 TOL plasmid of
Pseudomonas putida is down-regulated in vivo during exponential growth in rich medium …

Promoters in the environment: transcriptional regulation in its natural context

I Cases, V De Lorenzo - Nature Reviews Microbiology, 2005 - nature.com
Transcriptional activation of many bacterial promoters in their natural environment is not a
simple on/off decision. The expression of cognate genes is integrated in layers of iterative …

Mapping regulatory networks in microbial cells

RA VanBogelen, KD Greis, RM Blumenthal… - Trends in …, 1999 - cell.com
Genome sequences are the blueprints of diverse life forms but they reveal little information
about how cells make coherent responses to environmental changes. The combined use of …

Identifying global regulators in transcriptional regulatory networks in bacteria

A Martınez-Antonio, J Collado-Vides - Current opinion in microbiology, 2003 - Elsevier
The machinery for cells to take decisions, when environmental conditions change, includes
protein–DNA interactions defined by transcriptional factors and their targets around …

Transcriptomic fingerprinting of Pseudomonas putida under alternative physiological regimes

J Kim, JC Oliveros, PI Nikel… - Environmental …, 2013 - Wiley Online Library
P seudomonas putida KT 2440 is a metabolically versatile soil bacterium useful both as a
model biodegradative organism and as a host of catalytic activities of biotechnological …

Microarray expression profiling: capturing a genome‐wide portrait of the transcriptome

T Conway, GK, Schoolnik - Molecular microbiology, 2003 - Wiley Online Library
The bacterial transcriptome is a dynamic entity that reflects the organism's immediate,
ongoing and genome‐wide response to its environment. Microarray expression profiling …