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RNA-seq for RpoN

ABSTRACT: RNA-seq for RpoN

PROVIDER: PRJNA433727 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR6705506_1.fastq.gz	Fastqsanger.gz
	SRR6705506_2.fastq.gz	Fastqsanger.gz
	SRR6705507_1.fastq.gz	Fastqsanger.gz
	SRR6705507_2.fastq.gz	Fastqsanger.gz
	SRR6705508_1.fastq.gz	Fastqsanger.gz

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RNA-seq for RpoN

Project description:Pseudomonas aeruginosa is a Gram-negative opportunistic pathogen of humans, most notably those with cystic fibrosis or whose immune systems are compromised. As a global regulator, RpoN has been characterized to control a group of virulence-related factors and quorum sensing (QS) genes in P. aeruginosa, but its detailed molecular regulatory mechanism is largely elusive. To further gain insights into the direct targets of RpoN in vivo, this study focused on identifying the potential targets of RpoN directly regulating QS system and T6SS. We performed a chromatin immunoprecipitation coupled to high-throughput sequencing (ChIP-seq) assay that identified 1, 068 binding sites of RpoN, including mostly metabolic genes, a group of genes in QS (lasI, rhlI and pqsR) and type VI secretion system (T6SS) (hcpA and hcpB). The direct regulation of these genes by RpoN has been biochemically and genetically verified. Results revealed that, on one hand, the deletion of rpoN resulted in reduced production of pyocyanin, motility and proteolytic activity. On the other hand, the production of rhamnolipids and biofilm formation was higher in the RpoN mutant than in the wild-type. In sum, the results indicated that RpoN had direct and profound effects on QS and T6SS, which provides new cues to better understand the detailed regulatory networks of virulence.

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RNA-seq of pathogenic Escherichia coli strains CFT073 and EDL933 wild-type, rpoN mutant, and rpoN mutant + rpoN strains

Project description:RNA-seq of pathogenic Escherichia coli strains CFT073 and EDL933 wild-type, rpoN mutant, and rpoN mutant + rpoN strains

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RNA-seq of pathogenic Escherichia coli strains CFT073 and EDL933 wild-type, rpoN mutant, and rpoN mutant + rpoN strains

Project description:Experiment conducted to investigate the genetic factors associated with variable and heterogeneous non-planktonic in a mutant lacking rpoN unique to CFT073 bacteria. The aim was to try to understand why RpoN suppresses this heterogeneity in the wild-type during colony growth, but also asses why this phenotype does not occur in other pathogenic strains by also sequencing transcripts from EHEC EDL933. The rpoN mutant strains was complemented with plasmid-borne rpoN containing its native promoter to ensure any differences in gene expression could solely be attributed to the absence of rpoN alone.

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RNA-seq of Clostridioides difficile ∆rpoN mutant against wild-type control

Project description:The experiment intends to reveal the difference in gene expression profiles between the wild-type strain and the ∆rpoN mutant of Clostridioides difficile. We first constructed the ∆rpoN mutant, and the phenotypic changes of the ∆rpoN mutant against the wild-type strain were studied. To further elucidate the mechanism of phenotypic changes of the ∆rpoN mutant, RNA-sequencing experiments were carried out to reveal the underlying mechanism of phenotypic changes.

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Project description:comparison of total RNA profiles obtained from wt and rpoN mutant strains in presence of the dctDAAA peptide and chIP/chip experiments to define rpoN targeted DNA segments

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Project description:RNA-seq of Clostridioides difficile ∆rpoN mutant against wild-type control

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