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Determination of ErfA regulon by RNA-seq in IHMA87 and PAO1

ABSTRACT: Determination of ErfA regulon by RNA-seq in IHMA87 and PAO1

PROVIDER: PRJNA565718 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR10123800.fastq.gz	Fastqsanger.gz
	SRR10123801.fastq.gz	Fastqsanger.gz
	SRR10123802.fastq.gz	Fastqsanger.gz
	SRR10123803.fastq.gz	Fastqsanger.gz
	SRR10123804.fastq.gz	Fastqsanger.gz

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Project description:The ParS/ParR two component regulatory system plays important roles for multidrug resistance in Pseudomonas aeruginosa. In this study we report RNA-seq analyses of the transcriptomes of P. aeruginosa PAO1 wild type and par mutants growing in a minimal medium containing 2% casamino acids. This has allowed the quantification of PAO1 transcriptome, and further defines the regulon that is dependent on the ParS/ParR system for expression. Our RNA-seq analysis produced the first estimates of absolute transcript abundance for the 5570 coding genes in P. aeruginosa PAO1. Comparative transcriptomics of P. aeruginosa PAO1 and par mutants identified a total of 464 genes regulated by ParS and ParR. Results also showed that mutations in the parS/parR system abolished the expression of the mexEF-oprN operon by down-regulating the regulatory gene mexS. In addition to affecting drug resistance genes, transcripts of quorum sensing genes (rhlIR and pqsABCDE-phnAB), were significantly up-regulated in both parS and parR mutants. Consistent with these results, a significant portion of the ParS/ParR regulated genes belonged to the MexEF-OprN and quorum sensing regulons. Deletion of par genes also lead to overproduction of phenazines and increased swarming motility, consistent with the up-regulation of quorum sensing genes. Our results established a link among ParS/ParR, MexEF-OprN and quorum sensing in Pseudomonas aeruginosa. Based on these results, we propose a model to illustrate the relationship among these regulatory systems in P. aeruginosa.

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PAO1 Hfq-V RNA-seq

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Regulon of transcriptional regulator PA2449 in Pseduomonas aeruginosa PAO1

Project description:The putative trancriptional regulator PA2449 was found to be essential for both glycine/serine metabolism and the production of phenazines in P. aeruignosa PAO1. We examined the regulon controlled by PA2449 via microarray analysis between wild-type P. aeruignosa PAO1 and the PA2449-null mutant P. aeruginosa PW5126. Both strains were obtained from the PA-two allele library (Univ. of Washington, Ref. Jacobs et al. 2003. PNAS 100, 14339). Strains were grown under conditions known to induce phenazine biosynthesis (peptone broth), and their resulting transcriptomes were compared. Total RNA was isolated and prepped for Affymetrix GeneChips.

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Determination of ErfA regulon by RNA-seq in IHMA87 and PAO1

Project description:ErfA is a transcription factor of Pseudomonas aeruginosa. We here define the genes impacted by the deletion of erfA by RNA-seq.

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