Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1146760 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR30200386_1.fastq.gz | Fastqsanger.gz | |||
| SRR30200386_2.fastq.gz | Fastqsanger.gz | |||
| SRR30200387_1.fastq.gz | Fastqsanger.gz | |||
| SRR30200387_2.fastq.gz | Fastqsanger.gz | |||
| SRR30200388_1.fastq.gz | Fastqsanger.gz |
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Similar Datasets
Project description:One of the most distinct features of Pseudoalteromonas sp. SCSIO 11900 is its ability to form a very robust pellicle than most Pseudoalteromonas strains. Thus we want to identify the genes essential for the pellicle formation of SCSIO 11900. We compared transcriptom profiles of planktonic cells, initial pellicle and mature pellicle of coral Pseudoalteromonas sp. SCSIO 11900 and revealed that some unique genes from horizontal gene transfer is involved in the pellicle formation of SCSIO 11900.
2017-04-04 | GSE97322 | GEO
Project description:Streptomyces atratus PvR053 genome sequencing
| PRJNA1115629 | ENA
Project description:Alam2010 - Genome-scale metabolic network of
Streptomyces coelicolor
This model is described in the article:
Metabolic modeling and
analysis of the metabolic switch in Streptomyces
coelicolor.
Alam MT, Merlo ME, STREAM
Consortium, Hodgson DA, Wellington EM, Takano E, Breitling
R.
BMC Genomics 2010; 11: 202
Abstract:
BACKGROUND: The transition from exponential to stationary
phase in Streptomyces coelicolor is accompanied by a major
metabolic switch and results in a strong activation of
secondary metabolism. Here we have explored the underlying
reorganization of the metabolome by combining computational
predictions based on constraint-based modeling and detailed
transcriptomics time course observations. RESULTS: We
reconstructed the stoichiometric matrix of S. coelicolor,
including the major antibiotic biosynthesis pathways, and
performed flux balance analysis to predict flux changes that
occur when the cell switches from biomass to antibiotic
production. We defined the model input based on observed
fermenter culture data and used a dynamically varying objective
function to represent the metabolic switch. The predicted
fluxes of many genes show highly significant correlation to the
time series of the corresponding gene expression data.
Individual mispredictions identify novel links between
antibiotic production and primary metabolism. CONCLUSION: Our
results show the usefulness of constraint-based modeling for
providing a detailed interpretation of time course gene
expression data.
This model is hosted on
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and identified by:
MODEL1507180005.
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2015-07-30 | MODEL1507180005 | BioModels
Project description:Antibiotic biosynthesis in Streptomyces species is controlled by a complex genetic and biochemical network of global and pathway specific regulators. Details of their precise interactions in mediating temporal and spatial expression of secondary metabolite genes remain poorly defined. In this study, we employed whole-genome microarrays to investigate the temporal transcriptome profiles of S. coelicolor A3(2) afsS::apr mutant strain (YSK4425) and compare it to wild-type M145 strain. The regulatory protein encoded by afsS is known to affect antibiotic biosynthesis (Floriano, B., Bibb, M. 1996. afsR is a pleiotropic but conditionally required regulatory gene for antibiotic production in Streptomyces coelicolor A3(2). Mol Microbiol, 21, 385-96). Keywords: Time course
2007-06-23 | GSE8160 | GEO
Project description:Antibiotic biosynthesis in Streptomyces species is controlled by a complex genetic and biochemical network of global and pathway specific regulators. Details of their precise interactions in mediating temporal and spatial expression of secondary metabolite genes remain poorly defined. In this study, we employed whole-genome microarray methods to investigate the temporal transcriptome profiles of S. coelicolor A3(2) ∆afsS::apr mutant strain and compared with the M145 Wild-type strain (series submitted separately). Keywords: Time course
2007-06-14 | GSE8110 | GEO
Project description:Antibiotic biosynthesis in Streptomyces species is controlled by a complex genetic and biochemical network of global and pathway specific regulators. Details of their precise interactions in mediating temporal and spatial expression of secondary metabolite genes remain poorly defined. In this study, we employed whole-genome microarray methods to investigate the temporal transcriptome profiles of S. coelicolor A3(2) ∆absA1::apr mutant strain and compared with the M145 Wild-type strain (series submitted separately). Keywords: Time course
2007-06-14 | GSE8109 | GEO
Project description:Antibiotic biosynthesis in Streptomyces species is controlled by a complex genetic and biochemical network of global and pathway specific regulators. Details of their precise interactions in mediating temporal and spatial expression of secondary metabolite genes remain poorly defined. In this study, we employed whole-genome microarray methods to investigate the temporal transcriptome profiles of S. coelicolor A3(2) ∆absA1::apr mutant strain and compared with the M145 Wild-type strain (series submitted separately). Keywords: Time course
2007-06-14 | GSE8108 | GEO