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Genome-wide distribution of AdpA, a global regulator for secondary metabolism and morphological differentiation in Streptomyces, revealed the extent and complexity of the AdpA regulatory network.

ABSTRACT: Genome-wide distribution of AdpA, a global regulator for secondary metabolism and morphological differentiation in Streptomyces, revealed the extent and complexity of the AdpA regulatory network.

PROVIDER: PRJNA150637 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR387739.fastq.gz	Fastqsanger.gz
	SRR387740.fastq.gz	Fastqsanger.gz
	SRR387742.fastq.gz	Fastqsanger.gz
	SRR387743.fastq.gz	Fastqsanger.gz
	SRR387744.fastq.gz	Fastqsanger.gz

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Similar Datasets

Genome-wide distribution of AdpA, a global regulator for secondary metabolism and morphological differentiation in Streptomyces, revealed the extent and complexity of the AdpA regulatory network.

Project description:This SuperSeries is composed of the following subset Series: GSE33992: Streptomyces griseus transcriptome analysis in solid culture with delta adpA, encoding a global transcriptional regulator involved in morphological differentiation and secondary metabolism GSE33993: Streptomyces griseus transcriptome analysis in liquid culture with delta adpA, encoding a global transcriptional regulator involved in morphological differentiation and secondary metabolism GSE34036: Genome-wide distribution of AdpA, a global regulator for secondary metabolism and morphological differentiation in Streptomyces [liquid] GSE34037: Genome-wide distribution of AdpA, a global regulator for secondary metabolism and morphological differentiation in Streptomyces [solid] Refer to individual Series

2012-04-03 | E-GEOD-33994 | biostudies-arrayexpress

Genome-wide distribution of AdpA, a global regulator for secondary metabolism and morphological differentiation in Streptomyces [solid]

Project description:AdpA is a global transcriptional activator triggering morphological differentiation and secondary metabolism in Streptomyces griseus. AdpA influences expression of >1,000 genes, but the overall picture of AdpA regulon has been obscure. Here, we took snapshots of distribution of AdpA across the chromosome in living S. griseus cells by ChIP/ChAP-seq analysis. In both liquid and solid cultures, AdpA bound to similar >1,200 sites, which were located on not only putative regulatory regions (65 %) but also regions (35 %) that appeared not to affect transcription. Transcriptome analysis indicated that approximately 40% of the AdpA binding sites in putative regulatory regions were involved in gene regulation. AdpA was indicated to act as a transcriptional repressor as well as an activator. Expression profiles of AdpA-target genes were very different between liquid and solid cultures in spite of similar AdpA-binding profiles. We therefore concluded that AdpA directly controls >500 genes in cooperation with other regulatory proteins in many cases. In vitro AdpA binding to the selected 304 AdpA-binding sites was examined, revealing several unique characteristics of AdpA regarding its DNA-binding property. This study gave the first experimental insight into the extent of AdpA regulon, indicating many genes under the direct control of AdpA. Time course analysis of genome-wide distribution of AdpA on solid culture

2012-04-03 | E-GEOD-34037 | biostudies-arrayexpress

Genome-wide distribution of AdpA, a global regulator for secondary metabolism and morphological differentiation in Streptomyces [liquid]

Project description:AdpA is a global transcriptional activator triggering morphological differentiation and secondary metabolism in Streptomyces griseus. AdpA influences expression of >1,000 genes, but the overall picture of AdpA regulon has been obscure. Here, we took snapshots of distribution of AdpA across the chromosome in living S. griseus cells by ChIP/ChAP-seq analysis. In both liquid and solid cultures, AdpA bound to similar >1,200 sites, which were located on not only putative regulatory regions (65 %) but also regions (35 %) that appeared not to affect transcription. Transcriptome analysis indicated that approximately 40% of the AdpA binding sites in putative regulatory regions were involved in gene regulation. AdpA was indicated to act as a transcriptional repressor as well as an activator. Expression profiles of AdpA-target genes were very different between liquid and solid cultures in spite of similar AdpA-binding profiles. We therefore concluded that AdpA directly controls >500 genes in cooperation with other regulatory proteins in many cases. In vitro AdpA binding to the selected 304 AdpA-binding sites was examined, revealing several unique characteristics of AdpA regarding its DNA-binding property. This study gave the first experimental insight into the extent of AdpA regulon, indicating many genes under the direct control of AdpA. Analysis of genome-wide distribution of AdpA on liquid culture with two different methods to isolate AdpA-DNA complex

2012-04-03 | E-GEOD-34036 | biostudies-arrayexpress

Genome-wide distribution of AdpA, a global regulator for secondary metabolism and morphological differentiation in Streptomyces [solid]

2012-04-04 | GSE34037 | GEO

Genome-wide distribution of AdpA, a global regulator for secondary metabolism and morphological differentiation in Streptomyces [liquid]

2012-04-04 | GSE34036 | GEO

Streptomyces griseus transcriptome analysis in liquid culture with delta adpA, encoding a global transcriptional regulator involved in morphological differentiation and secondary metabolism

Project description:To identify genes regulated by AdpA in liquid culture, transcriptome profiles between delta adpA strains with his-adpA and control delta adpA strains were analyzed.

2012-04-04 | GSE33993 | GEO

Streptomyces griseus transcriptome analysis in solid culture with delta adpA, encoding a global transcriptional regulator involved in morphological differentiation and secondary metabolism

Project description:To identify genes regulated by AdpA in solid culture, transcriptome profiles between delta adpA strains with his-adpA and control delta adpA strains were analyzed.

2012-04-04 | GSE33992 | GEO

Genome-wide distribution of AdpA, a global regulator for secondary metabolism and morphological differentiation in Streptomyces, revealed the extent and complexity of the AdpA regulatory network.

Project description:This SuperSeries is composed of the SubSeries listed below.

2012-04-04 | GSE33994 | GEO

Genome-wide distribution of AdpA, a global regulator for secondary metabolism and morphological differentiation in Streptomyces, revealed the extent and complexity of the AdpA regulatory network.

Project description:AdpA is a global transcriptional activator triggering morphological differentiation and secondary metabolism in Streptomyces griseus. AdpA influences the expression of >1000 genes; however, the overall picture of the AdpA regulon remains obscure. Here, we took snapshots of the distribution of AdpA across the chromosome in living S. griseus cells using chromatin immunoprecipitation/chromatin affinity precipitation-seq analysis. In both liquid and solid cultures, AdpA bound to >1200 similar sites, which were located on not only in putative regulatory regions (65%), but also in regions (35%) that appeared not to affect transcription. Transcriptome analysis indicated that ~40% of the AdpA-binding sites in putative regulatory regions were involved in gene regulation. AdpA was indicated to act as a transcriptional repressor as well as an activator. Expression profiles of AdpA-target genes were very different between liquid and solid cultures, despite their similar AdpA-binding profiles. We concluded that AdpA directly controls >500 genes in cooperation with other regulatory proteins. A comprehensive competitive gel mobility shift assay of AdpA with 304 selected AdpA-binding sites revealed several unique characteristics of the DNA-binding property of AdpA. This study provides the first experimental insight into the extent of the AdpA regulon, indicating that many genes are under the direct control of AdpA.

| S-EPMC3372375 | biostudies-literature

Streptomyces clavuligerus Transcriptome using adpA deleted and overexpressed mutants

Project description:RNA seq analysis was performed using adpA-deleted and adpA-overexpressed Streptomyces clavuligerus strains to determine its regulatory effect on tunicamycin and other secondary metabolites production

2024-07-01 | GSE243267 | GEO

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