Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription profiling by array of Streptomyces coelicolor abrC1C2C3 deletion mutant defective in antibiotic production

ABSTRACT: The Streptomyces coelicolor system SCO4596/4597/4598 (AbrC1/C2/C3), composed of two histidine kinases and one response regulator, had positive effects both on morphological development and antibiotic production. This represents the microarray analyses of the deltaabrC1/C2/C3 and wild-type transcriptomes from 50 hours cultures grown on solid plates

ORGANISM(S): Streptomyces coelicolor

SUBMITTER: Antonio Rodríguez-García

PROVIDER: E-MEXP-2841 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Transcription profiling of Streptomyces coelicolor wild type and delta0877 and delta7173 mutant strains

Project description:Gene expression analysis of S. coelicolor M145 wild type strain, and mutants delta0877 and delta 7173. RNA samples were extracted from 48 h culture samples during growth in flasks in defined mineral medium MG supplemented with 5% of yeast extract. Cy5 labelled genomic DNA was used as the common reference.

2009-04-17 | E-MEXP-2132 | biostudies-arrayexpress

Transcription profiling of Streptomyces coelicolor bldC null mutant and parental strain M600

Project description:Transcription profiling of Streptomyces coelicolor bldC null mutant and parental strain M600 in liquid culture exponential phase

2012-03-31 | E-MEXP-3197 | biostudies-arrayexpress

Transcription profiling by array of Streptomyces coelicolor bldD null mutant and parental strain M600

Project description:Comparison transcriptional profile of S. coelicolor M600 (a plasmid-free derivative of the wild type) with that of a congenic bldD null mutant in rapidly growing cultures in liquid rich medium.

2010-08-05 | E-MEXP-2853 | biostudies-arrayexpress

Functional connexion of bacterioferritin in antibiotic production and morphological differentiation in Streptomyces coelicolor

Project description:Several two-component systems of Streptomyces coelicolor, a model organism to study antibiotic production in Streptomyces, affects the expression of the bfr (SCO2113) gene, which codifies for a bacterioferritin, a protein involved in iron storage. The ∆bfr mutant has a delay in morphological differentiation and pigmented antibiotic production (actinorhodin and undecylprodigiosin) on complex media. The effect of iron in minimal medium was also tested in the wild type and the ∆bfr mutant, and we observed different production of the two pigmented antibiotics in minimal medium, with differences between strains depending on iron concentration and the medium (solid or liquid). Contrary to expected, no intracellular iron differences were detected between the two strains, but there is a higher level of reactive oxygen species in the ∆bfr mutant and a higher tolerance to oxidative stress. Proteomics analysis showed no variation in iron response proteins and a lower abundance of proteins related to actinorhodin, ribosomal proteins and others related to secondary metabolism production and differentiation. On the contrary, it revealed a higher abundance of proteins related to different kind of stresses such as respiration and hypoxia, among others. The bacterioferritin of S. coelicolor is a new element in the complex regulation of the secondary metabolism in S. coelicolor and iron acts as a signal to modulate the biosynthesis of active molecules.

2024-09-09 | PXD050869 | Pride

Differential expression of S. coelicolor M145 vs. an abrC3 mutant in NB

Project description:Differential expression data set of S. coelicolor M145 and a abrC3 mutant cultured in NB. RNA samples were collected at 36, 48 and 60 hours following cDNA synthesis and labeling. The hybridization was conducted using DNA 104K microarrays (Surrey) using gDNA from S. coelicolor M145 as reference.

2014-01-14 | E-MTAB-1453 | biostudies-arrayexpress

Transcriptome profiling of wheat seedlings following treatment with ultra-high diluted Arsenicum trioxide

Project description:A recently developed plant model [Betti et al., 2010 TheScientificWorldJOURNAL, 10, 2330M-^V2347] was used for identifying differentially expressed genes associated with plant response to ultra-high diluted (beyond the Avogadro limit) treatments. Seeds of common wheat (Triticum aestivum L.), previously treated with a sublethal dose (0.1%) of Arsenicum trioxide (stressed system) and untreated (non stressed system) were grown in the presence of either ultra-high diluted As2O3 (1e-47 M) or water. RNA was extracted from 7-day old seedlings and Affymetrix GeneChip Wheat Genome Array used for transcription profiling.

2015-03-12 | E-MEXP-3666 | biostudies-arrayexpress

S.coelicolor_Rok7B7vsM145_MM+mannitol_time_course_expression

Project description:For transcript analysis, total RNA was isolated as described (Noens et al, 2007) from surface-grown mycelia of S. coelicolor M145 and its rok7B7 null mutant, cultivated on MM agar plates with mannitol (1% w/v) as the sole carbon source (plates were covered with cellophane discs). Two independent biological replicate experiments were performed. Samples were taken at 14h (early vegetative growth), 24 h (vegetative growth), 30 h (early aerial growth), 36 h (aerial growth), 42 h (early sporulation) and 54 h (sporulation). Total RNA was purified using the Kirby-mix protocol (Kieser et al, 2000). DNaseI treatment was used to fully remove any traces of DNA. Before use, the RNA samples were checked for integrity on an Agilent 2100 Bioanalyzer (Agilent Technologies). cDNA preparation and labeling was performed as previously described (Bucca et al, 1997, Bucca et al, 2009). The filtered data sets were analyzed using rank products analysis (Breitling et al, 2004) via the Rank-ProdIt tool (Laing and Smith, 2010). Differentially expressed genes were identified as demonstrating a > 2 fold change in expression between the parental strain M145 (wild-type) and the rok7B7 mutant.

2014-01-14 | E-MTAB-1465 | biostudies-arrayexpress

Streptomyces coelicolor quantitative proteome and phosphoproteome analyses reveal proteins and phosphoproteins modulating differentiation and secondary metabolism

Project description:Investigation of proteome and phosphoproteome changes during Streptomyces coelictor life cycle using TMT tagging and calcium precipitation - titanium dioxide enrichment

2018-05-25 | PXD005558 | Pride

Aspergillus hypoxia array

Project description:3 replicates of WT and srbA knockout strains grown on GMM plates, harvested spores and inoculated 5x10^5 spores/ml in 300 ml of LGMM. Cultures incubated for 10h at 28C and then shifted for 2h to 37C (both at 200rpm) so they are just germinating at the start of the treatment. Cultures were shifted to hypoxia (37C, 200rpm) and incubated for 1hr. Samples were collected by pouring them over a filter paper in a Buechner funnel and snap froze the cells immediately in liquid nitrogen, and stored the cells at -80C and lyophilized all tissue at the same time after all samples were collected. RNA extraction was then done simultaneously with all time points.

2011-08-01 | E-MEXP-3172 | biostudies-arrayexpress

Dudler-Effect of syringolin treatment on powdery mildew infected Arabidopsis

Project description:Powdery mildew, caused by the fungus Blumeria graminis (DC) Speer, is one of the most important foliar diseases of cereals worldwide. It is an obligate biotrophic parasite, colonising leaf epidermal cells to obtain nutrients from the plant cells without killing them. Syringolin A (sylA), a circular peptide secreted by the phytopathogenic bacterium Pseudomonas syringae pv. syringae, triggers a hypersensitive cell death reaction (HR) at infection sites when sprayed onto powdery mildew infected wheat which essentially eradicates the fungus. The rational was to identify genes whose expression was specifically regulated during HR, i.e. genes that might be involved in the switch of compatibility to incompatibility.<br>Powdery mildew-infected or uninfected plants were treated with syringolin two days after infection and plant material for RNA extraction was collected at 0.5, 1, 2, 4, 8, 12 hours after treatment (hat), resulting in an early (2 and 4 hat) and late pool (8 and 12 hat). Plant material that was uninfected prior to syringolin treatment was collected 8 and 12 hat (late pool of uninfected plant material), and 1 hat, respectively.

2006-06-30 | E-MEXP-739 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data