Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Pseudomonas aeruginosa post-translational responses to elevated c-di-GMP levels

ABSTRACT: Pseudomonas aeruginosa post-translational responses to elevated c-di-GMP levels

PROVIDER: PRJNA760480 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR15712977.fastq.gz	Fastqsanger.gz
	SRR15712978.fastq.gz	Fastqsanger.gz
	SRR15712979.fastq.gz	Fastqsanger.gz
	SRR15712980.fastq.gz	Fastqsanger.gz
	SRR15712981.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 28

Similar Datasets

Pseudomonas aeruginosa post-translational responses to elevated c-di-GMP levels

Project description:C-di-GMP signaling can directly influence bacterial behavior by affecting the functionality of c-di-GMP-binding proteins. In addition, c-di-GMP can exert an indirect and more global effect on gene transcription or translation, e.g. via riboswitches or by binding to transcription factors. In this study, we investigated the effects of changes in intracellular c-di-GMP levels on gene expression and protein production in the opportunistic pathogen Pseudomonas aeruginosa. We induced c-di-GMP production via an ectopically introduced diguanylate cyclase and recorded the transcriptional, translational as well as proteomic profile of the cells. We demonstrate that rising levels of c-di-GMP in P. aeruginosa under growth conditions otherwise characterized by low c-di-GMP levels immediately cause a switch to a non-motile, auto-aggregative phenotype. This switch became apparent before any c-di-GMP-dependent role on transcription, translation, or protein abundance could be observed. Our results indicate that sudden rises in global c-di-GMP pools affect the P. aeruginosa phenotype via an alteration of protein functionality, rather than an impact on global gene transcription or translation.

2024-09-03 | GSE183394 | GEO

Post-translational responses to elevated c-di-GMP levels in Pseudomonas aeruginosa

Project description:To analyze the impact of elevated c-di-GMP concentrations in P. aeruginosa, we expressed pleD* on an inducible vector (pHERD20T) in the PAO1 wild-type strain. PleD is a DGC from Caulobacter cresentusand the pleD* construct variant encodes for a constitutively active enzyme due to four amino acid exchanges (T120N, T214A, P234H, N357Y).We aimed to analyze the cellular consequences of increased c-di-GMP levels in the opportunistic pathogen P. aeruginosa on a global scale. We therefore grew the pleD* harboring PAO1 as well as the empty vector control PAO1 in LB medium, added arabinose (0.2%) to the medium to induce pleD* expression and harvested the cells in exponential growth phase, when the cells exhibited elevated c-di-GMP levels of about two-fold (see manuscript). We are discribing the characteristics of elevated c-di-GMP with a Multi-Omics-Dataset.

2022-07-25 | PXD027098 | Pride

Effect of elevated c-di-GMP in Sinorhizobium meliloti

Project description:Sinorhizobium meliloti is a soil-dwelling symbiotic alphaproteobacterium. Cyclic di-GMP is an important second messenger controlling multiple functions in this microorganism. To understand transcriptional regulation by elevated c-di-GMP in S. meliloti, the transcriptome analysis was performed on the wild type strain S. meliloti Rm2011 carrying either an empty vector pWBT or diguanylate cyclase gene pleD overexpression plasmid pWBT-pleD.

2017-06-01 | E-MTAB-5410 | biostudies-arrayexpress

Elevated intracellular cyclic-di-GMP level in Shewanella oneidensis increases expression of c-type cytochromes

Project description:Transcriptomic analysis used to understand the influence of elevated intracellular cyclic-di-GMP in Shewanella oneidensis on expression of c-type cytochrome at transcript level.

2021-01-26 | GSE138586 | GEO

Vibrio vulnificus: normal intracellular c-di-GMP level vs. high intracellular c-di-GMP level

Project description:The profiles of transcripts from the V. vulnificus grown under normal and high c-di-GMP conditions were compared by using a V. vulnificus whole-genome microarray Two-condition experiment, normal c-di-GMP condition vs. high c-di-GMP condition. Biological replicates: 3 control, 3 experimental, independently grown and harvested. One replicate per array. For transcriptome analysis, the V. vulnificus whole genome TwinChip, manufactured and kindly provided by the 21C Frontier Microbial Genomics and Applications Center (Daejeon, South Korea), was used.

2013-10-22 | E-GEOD-51459 | biostudies-arrayexpress

High intracellular c-di-GMP levels antagonize quorum sensing and virulence gene expression in Burkholderia cenocepacia H111

Project description:In this study, we have analysed the transcriptional profile of B. cenocepacia H111 upon artificially altering the global cellular c-di-GMP levels. A total of 111 genes was found to be differentially expressed, of which 96 genes were down-regulated when c-di-GMP concentrations were increased. The BDSF, AHL and c-di-GMP regulons overlap for the regulation of 24 genes. Intriguingly, at a high intracellular c-di-GMP level expression of the AHL synthase cepI was found to be more than 10-fold down-regulated. Among the exclusively c-di-GMP regulated genes were genes of the phenylacetate catabolic pathway and of the type III secretion system.

2017-12-15 | GSE92442 | GEO

The Pleiotropic Effects of c-di-GMP content in Pseudomonas syringae

Project description:Although the ubiquitous bacterial secondary messenger cyclic diguanylate (c-di-GMP) plays important roles in various cellular functions including the formation of biofilm in a wide range of bacteria, its function in model plant pathogen Pseudomonas syringae is largely elusive. In order to test this in P. syringae, we overexpressed a diguanylate cyclase (YedQ) and a phosphodiesterase (YhjH) that are originally from Escherichia coli, resulting in high and low c-di-GMP levels in P. syringae, respectively. Through performing genome-wide RNA sequencing of these two strains, we found that c-di-GMP regulates (i) fliN, fliE and flhA genes, which are associated with flagellar assembly, (ii) alg8 and alg44, which are related to exopolysaccaride biosynthesis pathway, (iii) pvdE, pvdP and pvsA genes, related to siderophore biosynthesis pathway, and (iv) sodA, which is a superoxide dismutase. In particular, we identified five genes sensitive to elevated c-di-GMP level and constructed five luciferase-based reporters that effectively respond to intracellular level of c-di-GMP in P. syringae, which can be used to measure c-di-GMP levels in vivo in the future. Based on the RNA-seq results, phenotypic assays confirmed that c-di-GMP regulated many important biological pathways in P. syringae, such as negative regulation of type III secretion system (T3SS) and motility as well as positive regulation of EPS production, siderophore production and oxidative stress resistance. Taken together, the present study demonstrated that c-di-GMP is closely related to virulence and stress response in P. syringae, suggesting that tuning its level can be a new strategy to protect plants from the attack of this pathogen in the future.

2019-03-31 | GSE120889 | GEO

Genome-wide maps of gene transcription level of hypoxic Mycobacterium bovis BCG with different c-di-GMP levels

Project description:Objective of the study is to find out how c-di-GMP regulate bacteria under hypoxic conditions and new c-di-GMP receptors.

2021-10-16 | GSE185900 | GEO

c-di-GMP-induced conformational dynamics of the c-di-GMP-binding protein A (CdbA) from Myxococcus xanthus

Project description:The second messenger c-di-GMP has important functions in response to changing environmental and cellular cues in bacteria. Here, we report the identification of CdbA, a DNA binding protein of the ribbon-helix-helix family in Myxococcus xanthus, and show that it binds c-di-GMP in vitro. CdbA is essential for viability and its depletion caused defects in chromosome organization and segregation resulting in a block in cell division. CdbA binds multiple sites across the M. xanthus genome with moderate sequence specificity; however, its depletion only caused minor changes in transcription. C-di-GMP binding and DNA binding by CdbA are mutually exclusive and substitutions in the CdbA interfaces important for c-di-GMP binding not only abolished c-di-GMP binding but also DNA binding and rendered the mutant proteins non-functional in vivo. Our data are consistent with a model whereby CdbA functions as a nucleoid associated protein to organize the M. xanthus chromosome and the function of CdbA is modulated by c-di-GMP, thus, for the first time, establishing a link between c-di-GMP and chromosome organization and segregation.

2020-04-16 | PXD018028 | Pride

Vibrio vulnificus: normal intracellular c-di-GMP level vs. high intracellular c-di-GMP level

Project description:The profiles of transcripts from the V. vulnificus grown under normal and high c-di-GMP conditions were compared by using a V. vulnificus whole-genome microarray

2013-10-22 | GSE51459 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data