txid286[Organism] - GEO DataSets

Search results

Items: 1 to 20 of 11325

<< First< Prev

Page of 567

Select item 2002533331.

Intrinsically disordered regions regulate RhlE RNA helicase functions in bacteria

(Submitter supplied) RNA helicases—central enzymes in RNA metabolism— often feature intrinsically disordered regions (IDRs) that enable phase separation and complex interactions with other proteins and/or RNA molecules. IDRs are varied and fast evolving, which makes their function hard to predict. In the bacterial pathogen Pseudomonas aeruginosa, two non-redundant RNA helicases, RhlE1 and RhlE2, share a conserved REC catalytic core but have different C-terminal extensions (CTEs) composed of IDRs of diverse length and amino acid composition. more...

Organism:: Pseudomonas aeruginosa

Type:: Expression profiling by high throughput sequencing

Platform:: GPL26913
36 Samples

Download data: XLSX

Series

Accession:: GSE253333

ID:: 200253333

Select item 2002678622.

Pseudomonas aeruginosa Activates Quorum Sensing, Antioxidant Enzymes and Type VI Secretion in Response to Oxidative Stress to Initiate Biofilm Formation and Wound Chronicity

(Submitter supplied) Pseudomonas aeruginosa (PA) is an opportunistic pathogen frequently isolated from cutaneous chronic wounds. How PA, in the presence of oxidative stress (OS), colonizes chronic wounds and forms a biofilm is still unknown. The purpose of this study is to investigate the changes in gene expression seen when PA is challenged with the high levels of OS present in chronic wounds. We used a biofilm-forming PA strain isolated from the chronic wounds of our murine model (RPA) and performed a qPCR to obtain gene expression patterns as RPA developed a biofilm in vitro in the presence of high levels of OS, and then compared the findings in vivo, in our mouse model of chronic wounds. more...

Organism:: Pseudomonas aeruginosa

Type:: Expression profiling by high throughput sequencing

Platform:: GPL33271
18 Samples

Download data: TXT

Series

Accession:: GSE267862

ID:: 200267862

Select item 2002679053.

Study of pan-sRNome and regulatory mechanisms in pseudomonas aeruginosa reveals virulence-related functions of small non-coding RNAs

(Submitter supplied) Small non-coding RNAs (sRNAs) are pivotal regulators of post-transcriptional activities and various cellular processes in bacteria. This study highlighted a framework for understanding novel identified sRNA functions at gene expression and phenotypical levels and provides insights into sRNome assemblies in bacteria.

Organism:: Pseudomonas aeruginosa PAO1

Type:: Expression profiling by high throughput sequencing

Platform:: GPL19430
32 Samples

Download data: TXT

Series

Accession:: GSE267905

ID:: 200267905

Select item 2002467474.

Pseudomonas aeruginosa lasR QS network promotes phage infection by regulating the biosynthesis of LPS and type IV pili by regulating the biosynthesis of LPS and type IV pili

(Submitter supplied) Purpose: The purpose of this study was to investigate the effect of quorum sensing on phage infection. Methods: We constructed the lasR gene knockout strain of Pseudomonas aeruginosa PAO1 and performed transcriptome sequencing.

Organism:: Pseudomonas aeruginosa

Type:: Expression profiling by high throughput sequencing

Platform:: GPL18644
6 Samples

Download data: TSV, TXT

Series

Accession:: GSE246747

ID:: 200246747

Select item 2002551025.

Transcriptome profiling of Pseudomonas syringae pv. syringae 9644 in rich media and hrp-inducing minimum media

(Submitter supplied) Pseudomonas syringae pv. syringae 9644 (Pss9644) is a causal agent of bacterial cherry canker causing necrotic symptoms on leaves, fruits, gummosis and canker in woody tissues of sweet cherry (Prunus avium). To understand which virulent factor genes were expressed in vitro, Pss9644 was grown in rich media (King's B Broth) and minimum media (hrp-inducing minimum media). The latter mimics the in planta environment.

Organism:: Pseudomonas syringae pv. syringae

Type:: Expression profiling by high throughput sequencing

Platform:: GPL34164
6 Samples

Download data: TXT

Series

Accession:: GSE255102

ID:: 200255102

Select item 2002494836.

Antibacterial activities of the algal bromophenol methylrhodomelol against Pseudomonas aeruginosa

(Submitter supplied) Methylrhodomelol (1) is a bromophenol from the red alga Vertebrata lanosa (L.) T.A.Christensen that has been associated with antimicrobial properties. Aim of the current study was therefore, to assess the antimicrobial potential of this compound in more detail against the gram-negative pathogen Pseudomonas aeruginosa. 1 exerted weak bacteriostatic activity against different strains when grown in minimal medium, whereas other phenolics were inactive. more...

Organism:: Pseudomonas aeruginosa

Type:: Expression profiling by high throughput sequencing

Platform:: GPL33271
6 Samples

Download data: TXT

Series

Accession:: GSE249483

ID:: 200249483

Select item 2002366767.

The modification landscape of P. aeruginosa tRNAs

(Submitter supplied) RNA modifications have a substantial impact on tRNA function. While modifications in the anticodon loop play an important role in translational fidelity, modifications in the tRNA core influence tRNA structural stability. In bacteria, tRNA modifications play important roles in the stress response and expression of virulence factors. While tRNA modifications are well characterized in a few model organisms, our knowledge of tRNA modifications in human pathogens, such as Pseudomonas aeruginosa is lacking. more...

Organism:: Escherichia coli BW25113; Pseudomonas aeruginosa PA14

Type:: Non-coding RNA profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platforms:: GPL25344 GPL30881 GPL33546
27 Samples

Download data: CSV, FA, TXT

Series

Accession:: GSE236676

ID:: 200236676

PubMed Full text in PMC Similar studies

Select item 2002280228.

Differential expression of Pseudomonas fluorescens SBW25 during growth using glucose or MHPP as carbon sources

(Submitter supplied) Identify genes involved in catabolism of the compound Methyl 3-(4-hydroxyphenyl)propionate

Organism:: Pseudomonas fluorescens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL33279
8 Samples

Download data: CSV

Series

Accession:: GSE228022

ID:: 200228022

Select item 2002103099.

Pyrrole-based inhibitors of RND-type efflux pumps reverse antibiotic resistance and display antivirulence potential

(Submitter supplied) Efflux pumps of the resistance-nodulation-division (RND) superfamily, particularly the AcrAB-TolC and MexAB-OprM, besides mediating intrinsic and acquired resistance, also intervene in bacterial pathogenicity. Inhibitors of such pumps could restore activities of antibiotics and curb bacterial virulence. Here, we identify pyrrole-based compounds that boost antibiotic activity in Escherichia coli and Pseudomonas aeruginosa by inhibiting their archetype RND transporters. more...

Organism:: Pseudomonas aeruginosa

Type:: Expression profiling by high throughput sequencing

Platform:: GPL26913
6 Samples

Download data: XLSX

Series

Accession:: GSE210309

ID:: 200210309

Select item 20026145310.

Influence of the pqs genes on Pseudomonas quorum sensing

(Submitter supplied) The opportunistic pathogen Pseudomonas aeruginosa has complex quorum sensing (QS) circuitry, which involves two acylhomoserine lactone (AHL) systems, the LasI AHL synthase and LasR AHL-dependent transcriptional activator system and the RhlI AHL synthase-RhlR AHL-responsive transcriptional activator. There is also a quinoline signaling system (the Pseudomonas quinolone signal, PQS, system). Although there is a core set of genes regulated by the AHL circuits, there is substantial strain-to-strain variation in the non-core QS regulated genes. more...

Organism:: Pseudomonas aeruginosa

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24583
16 Samples

Download data: CSV, TXT

Series

Accession:: GSE261453

ID:: 200261453

Select item 20025410811.

A multiplexed chemical screen identifies a novel, species-specific Pseudomonas aeruginosa inhibitor that targets LPS interaction with the outer membrane protein, OprH [1401_dataset2]

(Submitter supplied) The surge of antimicrobial resistance in recent decades threatens efficacy of current antibiotics, particularly against Pseudomonas aeruginosa, a highly resistant gram-negative pathogen. The asymmetric outer membrane of P. aeruginosa combined with its array of efflux pumps provide a barrier to xenobiotic intracellular accumulation, thus making the discovery of novel drugs with whole cell antibacterial activity very challenging. more...

Organism:: Pseudomonas aeruginosa UCBPP-PA14

Type:: Expression profiling by high throughput sequencing

Platform:: GPL27892
30 Samples

Download data: CSV

Series

Accession:: GSE254108

ID:: 200254108

Select item 20025275612.

A multiplexed chemical screen identifies a novel, species-specific Pseudomonas aeruginosa inhibitor that targets LPS interaction with the outer membrane protein, OprH

Organism:: Pseudomonas aeruginosa UCBPP-PA14

Type:: Expression profiling by high throughput sequencing

Platform:: GPL27892
60 Samples

Download data: CSV

Series

Accession:: GSE252756

ID:: 200252756

Select item 20023170213.

Refining the transcriptional maps of Pseudomonas aeruginosa phages using ONT-cappable-seq

(Submitter supplied) The global transcriptional profiles of Pseudomonas aeruginosa phages LUZ19, LUZ24, YuA, PAK_P3, 14-1 and phiKZ was obtained using the long read RNA sequencing technique ONT-cappable-seq. Using this approach we obtained a comprehensive genome-wide map of viral transcription start sites, terminators and transcription units.

Organism:: Pseudomonas aeruginosa

Type:: Other; Expression profiling by high throughput sequencing

Platform:: GPL31946
12 Samples

Download data: NARROWPEAK

Series

Accession:: GSE231702

ID:: 200231702

PubMed Full text in PMC Similar studies

Select item 20024367514.

A phage nucleus-associated RNA-binding protein required for jumbo phage infection

(Submitter supplied) Large-genome bacteriophages (jumbo phages) of the Chimalliviriadae family assemble a nucleus-like compartment bounded by a protein shell that protects the replicating phage genome from host-encoded restriction enzymes and CRISPR/Cas nucleases. While the nuclear shell provides broad protection against host nucleases, it necessitates transport of mRNA out of the nucleus-like compartment for translation by host ribosomes, and transport of specific proteins into the nucleus-like compartment to support DNA replication and mRNA transcription. more...

Organism:: Pseudomonas aeruginosa

Type:: Expression profiling by high throughput sequencing; Other

Platform:: GPL24583
8 Samples

Download data: BED, BW

Series

Accession:: GSE243675

ID:: 200243675

Select item 20022543715.

Analysis of ΔcrcZ suppressor mutations

(Submitter supplied) The ΔcrcZ mutant shows constitutive repression of all crc/Hfq target genes in the translation. Therefore, it presents a hyper‐repressed phenotype (more repressed than the parental strain) in the acquisition of secondary carbon sources, even though the preferred carbon source is not present. Δcrc is more sensitive to antibiotics, more susceptible to oxidative stress, and less motile than the parental strain. more...

Organism:: Pseudomonas aeruginosa PAO1

Type:: Expression profiling by high throughput sequencing

Platform:: GPL15987
11 Samples

Download data: TXT

Series

Accession:: GSE225437

ID:: 200225437

Select item 20025402216.

GacA reduces virulence and increases competitiveness in planta in the tumorigenic olive pathogen Pseudomonas savastanoi p. savastanoi

(Submitter supplied) GacS/GacA is a widely distributed two-component system playing an essential role as a key global regulator, although its characterization in phytopathogenic bacteria has been deeply biased, being intensively studied in pathogens of herbaceous plants but barely investigated in pathogens of woody hosts. P. savastanoi pv. savastanoi (Psv) is characterized by inducing tumours in the stem and branches of olive trees. more...

Organism:: Pseudomonas savastanoi pv. savastanoi

Type:: Expression profiling by high throughput sequencing

Platform:: GPL34126
8 Samples

Download data: TXT

Series

Accession:: GSE254022

ID:: 200254022

PubMed Full text in PMC Similar studies

Select item 20023950517.

Bacterial single cell RNA-seq unveils cyclic-di-GMP as an antitoxin critical for antibiotic tolerance in biofilm.

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Escherichia coli str. K-12 substr. MG1655; Pseudomonas aeruginosa PAO1; Staphylococcus aureus

Type:: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platforms:: GPL28916 GPL27158 GPL26592
21 Samples

Download data: NARROWPEAK, TXT, XLSX

Series

Accession:: GSE239505

ID:: 200239505

Select item 20023950418.

Bacterial single cell RNA-seq unveils cyclic-di-GMP as an antitoxin critical for antibiotic tolerance in biofilm [scRNA-seq]

(Submitter supplied) Biofilms are heterogeneous bacterial communities featured by high persister prevalence, responsible for antibiotic tolerance. However, the mechanisms underlying persister formation within biofilms remained ambiguous. Here, by developing and utilizing a ribosomal RNA depleted bacterial single-cell RNA-seq method, RiboD-mSPLiT, we resolved biofilm heterogeneity and discovered pdeI as a marker gene for persister subgroup within biofilms. more...

Organism:: Escherichia coli str. K-12 substr. MG1655; Staphylococcus aureus; Pseudomonas aeruginosa PAO1

Type:: Expression profiling by high throughput sequencing

Platforms:: GPL27158 GPL26592 GPL28916
14 Samples

Download data: TXT, XLSX

Series

Accession:: GSE239504

ID:: 200239504

Select item 20023329719.

RNA-Seq and Ribo-Seq analyses of the study "tRNA epitranscriptome determines pathogenicity of the opportunistic pathogen Pseudomonas aeruginosa"

(Submitter supplied) The success of bacterial pathogens depends on the coordinated expression of virulence determinants. Regulatory circuits that drive pathogenesis are complex, multilayered, and incompletely understood. Here, we reveal that alterations in tRNA modifications define pathogenic phenotypes in the opportunistic pathogen Pseudomonas aeruginosa. We demonstrate that the enzymatic activity of GidA leads to the introduction of a carboxymethylaminomethyl modification in selected tRNAs. more...