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Chip-seq to identify HrdB regulated genes in Streptomyces coelicolor

ABSTRACT: Chip-seq to identify HrdB regulated genes in Streptomyces coelicolor

PROVIDER: PRJEB27299 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR2639620.fastq.gz	Fastqsanger.gz
	ERR2639621.fastq.gz	Fastqsanger.gz
	ERR2639622.fastq.gz	Fastqsanger.gz
	ERR2639623.fastq.gz	Fastqsanger.gz
	ERR2639619.fastq.gz	Fastqsanger.gz

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Chip-seq to identify HrdB regulated genes in Streptomyces coelicolor

Project description:Chip-seq to identify the HrdB (SCO5820) binding sites and regulated genes in Streptomyces coelicolor. The HrdB gene was tagged on genome by HA (Human Influenza hemagglutinin derived) epitope (TAC CCG TAC GAT GTG CCG GAT TAC GCG). We have 3 replicates with HrdB tagged by HA and 2 replicates with wild-type strain as controls. Chip-seq experiment was conducted using antibody against HA tag in vegetative growth phase (see protocols).

2018-10-14 | E-MTAB-6926 | biostudies-arrayexpress

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Project description:To identify unique gene expression in cAMP supplemented Streptomyces coelicolor M145 strain. The genes with different gene expression might be key genes to understand the effects of cAMP supplementation on the transcriptome of Streptomyces coelicolor M145.

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Project description:Chip-seq experiment used to identify the binding sites of alternative σ factor σE in Streptomyces coelicolor. We access the binding sites with and without EtOH stress condition (see methods). To capture the binding of σE, the σE gene was tagged on genome by HA (Human Influenza hemagglutinin derived) epitope (TAC CCA TAC GAC GTC CCA GAC TAC GCT) on its C-terminus, wild type strain without tagged σE served as negative control.

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Project description:GlnK is an important nitrogen sensor protein in Streptomyces coelicolor. Deletion of glnK results in a medium-dependent failure of aerial mycelium and spore formation and loss of antibiotic production. Thus, GlnK is not only a regulator of nitrogen metabolism but also of morphological differentiation and secondary metabolite production. Through a comparative transcriptomic approach between the S. coelicolor wild-type and a S. coelicolor glnK mutant strain, 142 genes were identified that are differentially regulated in both strains. Among these are genes of the ram and rag operon, which are involved in S. coelicolor morphogenesis, as well as, genes involved in gas vesicle biosynthesis and ectoine biosynthesis. Surprisingly, no relevant nitrogen genes were found to be differentially regulated, revealing that GlnK is not an important nitrogen sensor under the tested conditions.

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