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Comparison of transcriptomic profiles of Pseudomonas protegens H78 and its hfq mutant (H78Δhfq)

ABSTRACT: Comparison of transcriptomic profiles of Pseudomonas protegens H78 and its hfq mutant (H78Δhfq)

PROVIDER: PRJNA593945 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR10598388_1.fastq.gz	Fastqsanger.gz
	SRR10598388_2.fastq.gz	Fastqsanger.gz
	SRR10598389_1.fastq.gz	Fastqsanger.gz
	SRR10598389_2.fastq.gz	Fastqsanger.gz
	SRR10598390_1.fastq.gz	Fastqsanger.gz

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Comparison of transcriptomic profiles of Pseudomonas protegens H78 and its hfq mutant (H78Δhfq)

Project description:Transcriptomic profiles of Pseudomonas protegens H78 and its hfq mutant, which were grown to the late exponential phase (OD600 = 5.0 to 6.0) in the KMB media at 28 °C, were assessed by deep sequencing (RNA-seq) on Illumina HiSeq 2500.

2021-05-17 | GSE141556 | GEO

Comparison of transcriptomic profiles of Pseudomonas protegens H78 and its rpoN-deleted mutant (H78ΔrpoN)

Project description:Transcriptomic profiles of Pseudomonas protegens H78 and its rpoN-deleted mutant (H78ΔrpoN), which were grown to the late exponential phase (OD600 = 4.0 to 5.0) in the KMB media at 28 °C, were assessed by deep sequencing (RNA-seq) on BGISEQ-500 (illumina).

2018-09-25 | GSE112907 | GEO

Comparison of transcriptomic profiles of Pseudomonas protegens H78 and its crc-deleted mutant (H78Δcrc)

Project description:Transcriptomic profiles of Pseudomonas protegens H78 and its crc-deleted mutant (H78Δcrc), which were grown to the late exponential phase (OD600 = 5.0 to 6.0) in the KMB media at 28 °C, were assessed by deep sequencing (RNA-seq) on Illumina HiSeq 2500.

2021-05-17 | GSE141557 | GEO

Comparison of transcriptomic profiles of Pseudomonas protegens H78 and its (p)ppGpp0 relA/spoT mutant

Project description:Transcriptomic profiles of Pseudomonas protegens H78 and its (p)ppGpp0 relA/spoT mutant, which were grown to the late exponential phase (OD600 = 5.0 to 6.0) in the KMB media at 28 °C, were assessed by deep sequencing (RNA-seq) on Illumina 2500.

2017-02-27 | GSE89004 | GEO

Comparison of transcriptomic profiles of Pseudomonas protegens H78 and its crc-deleted mutant (H78Δcrc)

Project description:Comparison of transcriptomic profiles of Pseudomonas protegens H78 and its crc-deleted mutant (H78Δcrc)

| PRJNA593944 | ENA

Comparison of transcriptomic profiles of Pseudomonas protegens H78 and its rpoN-deleted mutant (H78ΔrpoN)

Project description:Comparison of transcriptomic profiles of Pseudomonas protegens H78 and its rpoN-deleted mutant (H78ΔrpoN)

| PRJNA449460 | ENA

Pseudomonas protegens strain:H78

Project description:Pseudomonas protegens strain:H78 Genome sequencing and assembly

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Pasteurella multocida Hfq mutant

Project description:Quantitative proteomics comparison wt and Hfq mutant Pasteurella multocida strains.

2016-03-14 | PXD003586 | Pride

Pseudomonas protegens

Project description:Comparison of transcriptomic profiles of Pseudomonas protegens H78 and its (p)ppGpp0 relA/spoT mutant

| PRJNA349482 | ENA

The global regulator Hfq exhibits far more extensive and intensive regulation than Crc in Pseudomonas protegens H78.

Project description:The biocontrol rhizobacterium Pseudomonas protegens H78 can produce a large array of antimicrobial secondary metabolites, including pyoluteorin (Plt), 2,4-diacetylphloroglucinol (DAPG), and pyrrolnitrin (Prn). Our preliminary study showed that the biosynthesis of antibiotics including Plt is activated by the RNA chaperone Hfq in P. protegens H78. This prompted us to explore the global regulatory mechanism of Hfq, as well as the catabolite repression control (Crc) protein in H78. The antimicrobial capacity of H78 was positively controlled by Hfq while slightly down-regulated by knockout of crc. Similarly, cell growth of H78 was significantly impaired by deletion of hfq and slightly inhibited by knockout of crc. Transcriptomic profiling revealed that hfq mutation resulted in significant down-regulation of 688 genes and up-regulation of 683 genes. However, only 113 genes were significantly down-regulated and 105 genes up-regulated by the crc mutation in H78. Hfq positively regulated the expression of gene clusters involved in secondary metabolism (plt, prn, phl, hcn, and pvd), the type VI secretion system, and aromatic compound degradation. However, Crc only positively regulated the biosynthesis of Plt but not other antibiotics. Hfq also regulated expression of genes involved in oxidative phosphorylation and flagellar biogenesis. In addition, Hfq and Crc activated transcription of crcY/Z sRNAs by feedback. In summary, Hfq processes far more extensive and intensive regulatory capacity than Crc and shows small cross-regulation with Crc in H78. This study lays the foundation for clarifying the Hfq and/or Crc-dependent global regulatory network and improving antibiotic production by genetic engineering in P. protegens.

| S-EPMC8295515 | biostudies-literature

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