Project description:Streptomyces coelicolor is a model organism for the study of Streptomyces, a genus of Gram-positive bacteria that undergoes a complex life cycle and produces an enormous repertoire of bioactive metabolites and extracellular enzymes. This study investigated the production and characterization of membrane vesicles (MVs) in liquid cultures of S. coelicolor M145 from a structural and biochemical point of view using microscopic, physical and -omics analyzes. Two main populations of MVs, F3 and F4 MVs, with different size and cargo were isolated and purified. S. coelicolor MV cargo is complex and contains many “messages” such as proteins and metabolites. A total of 166 proteins involved in cell metabolism and differentiation, molecular processing and transport was identified in MVs. In particular, a subset of these proteins was protected from the degradation after proteinase K treatment, indicating their localization inside the vesicles. Vesicle proteome includes many stress response proteins which also play an important role in S. coelicolor morpho- physiological differentiation. Moreover, MVs packaged with an array of metabolites such as antibiotics, vitamins, amino acids and components of carbon metabolism. The analysis of S. coelicolor MV cargo will provide informations to elucidate their biogenesis and functions
Project description:We identified genome-wide binding regions of NdgR in Streptomyces coelicolor using chromatin immunoprecipitation sequencing (ChIP-seq). We constructed 6×myc-tagged NdgR strain using homologous recombination with myc-tagging vector. Analysis of the sequencing data aligned to Streptomyces coelicolor genome database (NC_003888).
Project description:To identify unique gene expression in cAMP supplemented Streptomyces coelicolor M1146 strain. The genes with different gene expression might be key genes to understand the effects of cAMP supplementation on the transcriptome of Streptomyces coelicolor M1146.
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.
Project description:This study compared the genome of Streptomyces rimosus rimosus against that of Streptomyces coelicolor. It also compared 4 strains with changes in oxytetracycline production and derived from G7, the type strain, against G7. Keywords: Comparative genomic hybridization
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.
Project description:We determined genes that directly or indirectly regulated by CatR (or PerR), and hydrogen peroxide regulon in Streptomyces coelicolor.
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.
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