Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Metabolic switching of the PII protein GlnK in Streptomyces coelicolor

ABSTRACT: 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. 16 samples, no replicates; four hour resolution from 21-33h; one our resolution from 33-40 h; two hour resolution 40-50h

ORGANISM(S): Streptomyces coelicolor

SUBMITTER: Kay Nieselt

PROVIDER: E-GEOD-30570 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

The PII protein GlnK is a pleiotropic regulator for morphological differentiation and secondary metabolism in Streptomyces coelicolor.

Waldvogel Eva E Herbig Alexander A Battke Florian F Amin Rafat R Nentwich Merle M Nieselt Kay K Ellingsen Trond E TE Wentzel Alexander A Hodgson David A DA Wohlleben Wolfgang W Mast Yvonne Y

Applied microbiology and biotechnology 20111028 6

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 diff ...[more]

PMID: 22033567

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Project description:Borodina2005 - Genome-scale metabolic network of Streptomyces coelicolor (iIB711) This model is described in the article: Genome-scale analysis of Streptomyces coelicolor A3(2) metabolism. Borodina I, Krabben P, Nielsen J. Genome Res. 2005 Jun; 15(6): 820-829 Abstract: Streptomyces are filamentous soil bacteria that produce more than half of the known microbial antibiotics. We present the first genome-scale metabolic model of a representative of this group--Streptomyces coelicolor A3(2). The metabolism reconstruction was based on annotated genes, physiological and biochemical information. The stoichiometric model includes 819 biochemical conversions and 152 transport reactions, accounting for a total of 971 reactions. Of the reactions in the network, 700 are unique, while the rest are iso-reactions. The network comprises 500 metabolites. A total of 711 open reading frames (ORFs) were included in the model, which corresponds to 13% of the ORFs with assigned function in the S. coelicolor A3(2) genome. In a comparative analysis with the Streptomyces avermitilis genome, we showed that the metabolic genes are highly conserved between these species and therefore the model is suitable for use with other Streptomycetes. Flux balance analysis was applied for studies of the reconstructed metabolic network and to assess its metabolic capabilities for growth and polyketides production. The model predictions of wild-type and mutants' growth on different carbon and nitrogen sources agreed with the experimental data in most cases. We estimated the impact of each reaction knockout on the growth of the in silico strain on 62 carbon sources and two nitrogen sources, thereby identifying the "core" of the essential reactions. We also illustrated how reconstruction of a metabolic network at the genome level can be used to fill gaps in genome annotation. This model is hosted on BioModels Database and identified by: MODEL1507180049. To cite BioModels Database, please use: BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication for more information.

Dataset Information

Metabolic switching of the PII protein GlnK in Streptomyces coelicolor

Publications

The PII protein GlnK is a pleiotropic regulator for morphological differentiation and secondary metabolism in Streptomyces coelicolor.

Similar Datasets

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