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Responsive genes upon deletion of the ohkA gene in Streptomyces coelicolor M145

ABSTRACT: Transcription profile analysis between the wild-type strain M145 and the ohkA-deletion mutant to determine the overall transcription changes caused by the deletion of orphan histidine kinase gene ohkA in S.coelicolor.

ORGANISM(S): Streptomyces coelicolor Streptomyces coelicolor A3(2)

PROVIDER: GSE26426 | GEO | 2011/01/05

SECONDARY ACCESSION(S): PRJNA136805

REPOSITORIES: GEO

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Responsive genes upon deletion of the ohkA gene in Streptomyces coelicolor M145

Project description:Transcription profile analysis between the wild-type strain M145 and the ohkA-deletion mutant to determine the overall transcription changes caused by the deletion of orphan histidine kinase gene ohkA in S.coelicolor. Transcription changes between the ohkA mutant and the wild-type strain M145 were performed at three time points, 48,64,88h.

2011-01-05 | E-GEOD-26426 | biostudies-arrayexpress

Time course of Streptomyces coelicolor: M145 Control vs. wblA deletion mutant

2011-01-28 | GSE24396 | GEO

Time course of Streptomyces coelicolor: M145 Control vs. wblA deletion mutant

Project description:The basic experiment is a comparison of gene transcript levels of Streptomyces coelicolor M145 and its wblA deletion mutant at 6 timepoints (24, 36, 48, 60, 72 and 84 hours) encompassing vegetative growth, aerial growth, and sporulation on solid medium. The wblA mutant is morphologically defective, most of its aerial hyphae failing to show any sign of sporulation-directed attributes, and also overproduces some antibiotics. The microarray analysis was aimed to reveal the major transcriptional changes underpinning or associated with this pleiotropic phenotypic change. Using a fairly stringent cut-off, 291 genes were found to be affected, including developmental genes, antibiotic biosynthetic genes, and genes for primary metabolism. Some genes were over-expressed and others under-expressed in the mutant. Although the largest effects were mostly at timepoints corresponding to aerial growth and early sporulation, some genes were most strongly influenced at earlier timepoints. M145 vs wblA deletion mutant. 6 timepoints (24, 36, 48, 60, 72 and 84 hours) encompassing vegetative growth, aerial growth, and sporulation, were analysed. Each timepoint comprised 2 technical replicates each of 3 biological replicates. RNA was isolated from triplicated cultures grown on cellophane overlays on MM + mannitol after 24, 36, 48, 60, 72 and 84 hours of incubation. Samples of the RNA were converted to Cy3-labelled cDNA in vitro, and mixed with Cy5-labelled genomic DNA. Each mixture was hybridised to two glass slide microarrays each carrying oligonucleotide probes corresponding to 99% of the genes in the annotated S. coelicolor genome. Thus RNA from each timepoint was compared to the same batch of genomic DNA and the comparison used to arrive at expression values of genes. These expression values were then used to arrive at differential expression between M145 and the wblA deletion mutant for all genes at all six timepoints.

2011-01-28 | E-GEOD-24396 | biostudies-arrayexpress

Effects of cAMP supplementation on the transcriptome of Streptomyces coelicolor M145 strain

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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S coelicolor ∆argR vs S. coelicolor M145

Project description:S. coelicolor M145 and S. coelicolor ∆argR were grown in MG medium and samples from 3 biological replicates were taken at 32, 42, 49, 56 and 66 hours.

2015-08-19 | GSE58666 | GEO

Evidence of a role for CutRS and actinorhodin in the secretion stress response in Streptomyces coelicolor M145

Project description:This work was carried out to elucidate the proteins that are regulated by the two-component system CutRS in Streptomyces coelicolor M145 and how this response changes in the presence of glucose. A comparison of the whole cell proteomes of Streptomyces coelicolor M145 WT and Streptomyces coelicolor M145 ∆cutRS on both DNA (no glucose) and DNAD (with glucose) was made.

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RNA-Sequencing of Streptomyces coelicolor A3(2) (M145) in timeseries

Project description:SYSTERACT: Systematic Rebuilding of Actinomycetes for Natural Product Formation For several decades antibiotics have saved millions of lives, but their overuse makes them less effective due to increase in bacterial resistance. Because of this major clinical and public health problem, there is an urgent need for new effective antimicrobials. The ERASysAPP project SYSTERACT aims to further develop, the model actinobacterium Streptomyces coelicolor into improved microbial cell factories to heterologously produce diverse bioactive compounds in amounts needed for structural and functional evaluation. Unprecedented systems biology understanding of S. coelicolor is being combined with morphology engineering and improved (de-)regulation and precursor supply to accelerate bioactive compound discovery efforts. By that means, we aim to generate a stepwise improved 'Superhost' for the production of antibiotics in which metabolic bottlenecks and regulatory restriction are greatly mitigated. The optimized strains will be tested concerning their applicability for an improved production of commercially relevant antibiotics and the expression of novel bioactive gene clusters identified in new actinomycete strains and environmental metagenomes. So far two strains, M145 and M1152, have been cultivated for time-resolved 'omics sampling, and a larger number of additional strains are on the list for similar experiments. High quality RNAseq-based transcriptome data have been generated and processed. M145 is the wildtype strain in S. coelicolor (as used in STREAM, see also GSE18489), 3 biol. replicas and M1152 lacks four major biosynthetic gene clusters, undecylprodigine (RED), calcium-dependent antibiotic (CDA), coelimycin (CPK) and actinorhodin (ACT). Contributors: A. Wentzel, W. Wohlleben, G. van Wezel, D van Dissel, O. Wolkenhauer, E. Kerkhoven, N. Spidsoe, K. Nieselt and the SYSTERACT consortium

2019-10-09 | GSE132487 | GEO

Global effects of pathway-specific regulator CpkO and CpkN deletion in Streptomyces coelicolor A3(2)

Project description:Relative quantification of protein abundances of S. coelicolor A3(2) parent strain M145 and deletion mutants ∆cpkO and ∆cpkN. This study shows novel insights into the mechanism of coelimycin synthesis regulation and the network of interactions between cpk cluster regulatory proteins and the biosythetic genes of other secondary metabolite clusters.

2021-03-29 | PXD012672 | Pride

Streptomyces coelicolor cells during various developmental stages: wildtype M145 vs. ÎSCO0204.

Project description:Global transcriptional profiling of the SCO0204 null mutant of Streptomyces coelicolor M145 in comparison to the wildtype M145. Goal was to determine the role of SCO0204.

2016-04-14 | E-MTAB-4597 | biostudies-arrayexpress