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Functional characterization of TetR-like transcriptional regulator PA3973 from Pseudomonas aeruginosa [RNA-seq]

ABSTRACT: Functional characterization of TetR-like transcriptional regulator PA3973 from Pseudomonas aeruginosa [RNA-seq]

PROVIDER: PRJNA872104 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR21226834_1.fastq.gz	Fastqsanger.gz
	SRR21226834_2.fastq.gz	Fastqsanger.gz
	SRR21226835_1.fastq.gz	Fastqsanger.gz
	SRR21226835_2.fastq.gz	Fastqsanger.gz
	SRR21226836.fastq.gz	Fastqsanger.gz

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Functional characterization of TetR-like transcriptional regulator PA3973 from Pseudomonas aeruginosa [RNA-seq]

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Functional characterization of TetR-like transcriptional regulator PA3973 from Pseudomonas aeruginosa [ChIP-seq]

Project description:Functional characterization of TetR-like transcriptional regulator PA3973 from Pseudomonas aeruginosa [ChIP-seq]

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Functional characterization of TetR-like transcriptional regulator PA3973 from Pseudomonas aeruginosa [ChIP-seq]

Project description:Pseudomonas aeruginosa PA3973 encodes a putative TetR family transcriptional regulator, with a helix-turn-helix motif involved in DNA binding. We applied phenotype analyses, as well as transcriptome profiling (RNA-seq), and genome-wide identification of binding sites using ChIP-seq to unravel the biological role of PA3973. The ChIP-seq analysis identified more than 300 PA3973 binding sites in the P. aeruginosa genome, among them 139 were located in intergenic regions. The 13 bp sequence was identified as the preferential binding site of PA3973. The PA3973 regulon encompasses genes involved in stress response, including the putative PA3973-PA3970 operon. Transcriptional profiling of P. aeruginosa PAO1161 overexpressing PA3973 showed changes in the mRNA level of 648 genes; among them, 374 were down-regulated. Concomitantly, ChIP-seq analysis identified more than 300 PA3973 binding sites in the P. aeruginosa genome, among them 139 were located in intergenic regions. The 13 bp sequence was identified as the preferential binding site of PA3973.

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Project description:Stenotrophomonas maltophilia is an emerging opportunistic multidrug-resistant pathogen frequently co-isolated with other relevant nosocomial pathogens in respiratory tract infections. S. maltophilia uses the endogenous DSF quorum sensing (QS) system to regulate virulence processes but can also respond to exogenous AHL signals produced by neighboring bacteria. A whole-transcriptome sequencing analysis was performed for S. maltophilia strain K279a in the exponential and stationary phases and in exponential cultures after a treatment with exogenous DSF or AHLs. Among the common top upregulated genes, the putative TetR-like regulator Smlt2053 was selected for functional characterization. This regulator was found to sense long-chain fatty acids, including the QS signal DSF, and activate a β-oxidation catabolic pathway.

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Functional Characterization of TetR-like Transcriptional Regulator PA3973 from <i>Pseudomonas aeruginosa</i>.

Project description:Pseudomonas aeruginosa, a human opportunistic pathogen, is a common cause of nosocomial infections. Its ability to survive under different conditions relies on a complex regulatory network engaging transcriptional regulators controlling metabolic pathways and capabilities to efficiently use the available resources. P. aeruginosa PA3973 encodes an uncharacterized TetR family transcriptional regulator. In this study, we applied a transcriptome profiling (RNA-seq), genome-wide identification of binding sites using ChIP-seq, as well as the phenotype analyses to unravel the biological role of PA3973. Transcriptional profiling of P. aeruginosa PAO1161 overexpressing PA3973 showed changes in the mRNA level of 648 genes. Concomitantly, ChIP-seq analysis identified more than 300 PA3973 binding sites in the P. aeruginosa genome. A 13 bp sequence motif was indicated as the binding site of PA3973. The PA3973 regulon encompasses the PA3972-PA3971 genes encoding a probable acyl-CoA dehydrogenase and a thioesterase. In vitro analysis showed PA3973 binding to PA3973p. Accordingly, the lack of PA3973 triggered increased expression of PA3972 and PA3971. The ∆PA3972-71 PAO1161 strain demonstrated impaired growth in the presence of stress-inducing agents hydroxylamine or hydroxyurea, thus suggesting the role of PA3972-71 in pathogen survival upon stress. Overall our results showed that TetR-type transcriptional regulator PA3973 has multiple binding sites in the P. aeruginosa genome and influences the expression of diverse genes, including PA3972-PA3971, encoding proteins with a proposed role in stress response.

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