Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

41 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription profiling of Streptomyces coelicolor wild type and zur deletion strains

ABSTRACT: Description: In Streptomyces coelicolor the Zur repressor controls genes involved in zinc uptake and alternative ribosomal proteins that lack structural zinc. This experiment provides global gene expression patterns of M145 and S121 (zur deletion) grown in NMMP plus glucose medium to mid-log phase. The data reveal that Zur also controls genes involved in production of a non-ribosomally encoded siderophore-related peptide designated coelibactin.

ORGANISM(S): Streptomyces coelicolor

SUBMITTER: Emma Laing

PROVIDER: E-MAXD-56 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

The zinc-responsive regulator Zur controls expression of the coelibactin gene cluster in Streptomyces coelicolor.

Kallifidas Dimitris D Pascoe Ben B Owen Gillian A GA Strain-Damerell Claire M CM Hong Hee-Jeon HJ Paget Mark S B MS

Journal of bacteriology 20091113 2

Streptomyces coelicolor mutants lacking the zinc-responsive Zur repressor are conditionally defective in sporulation, presumably due to the overexpression of one or more Zur target genes. Gene disruption analyses revealed that deregulation of previously known Zur targets was not responsible for the sporulation phenotype. We used microarrays to identify further Zur targets and discovered that Zur controls a cluster of genes predicted to direct synthesis of an uncharacterized siderophore-related n ...[more]

PMID: 19915027

Similar Datasets

Transcription profiling of S. coelicolor grown in liquid culture and heat shock stimulated

Project description:Global gene expression patterns of two biological replicate cultures of S.coelicolor MT1110 grown on YEME plus 10% sucrose up to early stationary phase ( the culture conditions were the same used for obtaining ChIP-chip data with anti HspR antibodies). RNA was harvested from heat-shocked cultures (42oC) and control cultures grown at 30oC and hybridized onto high density IJISS arrays to identify which genes are induced following heat shock in S. coelicolor

2009-02-07 | E-MAXD-49 | biostudies-arrayexpress

Transcription profiling of Streptomyces coelicolor wild type and phP-null mutants at different time points during phosphate starvation

Project description:S. coelicolor was grown in low-phosphate concentration R5 liquid medium which facilitated the transition to a phosphate starvation induced stationary phase and the subsequent induction of the PhoP regulon. Global gene expression profiling of a wild-type and a phoP-null mutant was performed using samples isolated, respectively, at 24, 30, 35 and 45 h of growth. RNA was extracted and the resulting cDNA was hybridised to S. coelicolor high density DNA microarrays.

2012-08-30 | E-MAXD-51 | biostudies-arrayexpress

Transcription profiling of Streptomyces coelicolor hspR mutant compared to wild-type strain

Project description:Global gene expression patterns of S. coelicolor MT1151 and MT1153 (two independent MT1110 hspR disruption mutants ) cultures compared to MT1152 and MT1154 (two independent isolates of hspR+ integrants), grown on SMMS agar medium for 36 h .

2009-02-07 | E-MAXD-44 | biostudies-arrayexpress

Transcription profiling of Streptomyces coelicolor hspR+integrants of MT1110 after heat shock

Project description:Global gene expression patterns of MT1152 and MT1154 (two hspR+integrants of MT1110) grown on SMMS agar medium for 36 h and heat shocked at 42oC for 15 min. RNA was harvested from heat-shocked cultures and control cultures grown at 30oC and hybridized onto high density IJISS arrays to identify which genes are induced following heat shock in S.coelicolor

2009-02-07 | E-MAXD-46 | biostudies-arrayexpress

Transcription profiling of Streptomyces ceolicolor M600 and J2139 (sigR deletion) strains

Project description:In Streptomyces coelicolor the SigR sigma factor controls genes involved in coping with the deleterious formation of disulphide bonds in cellular proteins. This experiment provides global gene expression patterns of M600 and J2139 (sigR deletion) grown in NMMP plus glucose medium to mid-log phase then treated with diamide. The data reveal that sigR activates, directly or indirectly, more than 65 transcription units, encoding functions that include thiol-disulphide oxidoreductases, thiol buffers, and ATP-dependent proteases. The sigR regulon partially overlaps the ClgR and HspR regulons, that include functions for protein degradation and protein refolding. Diamide also leads to the transient down-regulation of central metabolic gene expression, in particular ribosomal protein expression.

2010-12-21 | E-MAXD-57 | biostudies-arrayexpress

CGH of Streptomyces coelicolor versus S. lividans 66 and TK24

Project description:Comparative genomic hybridization analysis of Streptomyces coelicolor A3(2) versus Streptomyces lividans 66 and Streptomyces lividans TK24 using high density 105,000 x 60-mer ink-jet in situ synthesized arrays.

2011-10-01 | E-MAXD-58 | biostudies-arrayexpress

Transcription profiling of Streptomyces coelicolor M600 bldA deletion mutant vs. wild-type M600 S.coelicolor A3(2) time series

Project description:Time-dependent gene expression patterns during development and antibiotic production on solid growth medium (SMM) comparing a M600 bldA deletion mutant with wild-type M600 of S.coelicolor A3(2). Eight time points matched in all three replicates of both wild-type and mutant were picked to span the entire Streptomyces growth curve.

2008-06-05 | E-MAXD-27 | biostudies-arrayexpress

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

Chromatin immunoprecipitation of Streptomyces coelicolor wild type and phP-null mutants during phosphate starvation to determine binding locations of PhoP

Project description:S. coelicolor was grown in low-phosphate concentration R5 liquid medium which facilitated the transition to a phosphate starvation induced stationary phase and the subsequent induction of the PhoP regulon. The genome wide binding locations of PhoP during phosphate starvation were determined by chromatin-immunopreciptiation followed by hybridisation to high density S. coelicolor DNA microarrays. The use of both wild-type S. coelicolor and phoP-null mutant strains allowed the identification of specific PhoP binding locations.

2012-08-30 | E-MAXD-50 | biostudies-arrayexpress

Chromatin immunoprecipitation of Streptomyces coelicolor HspR binding sites

Project description:Global ChIP-chip analysis of HspR repressor binding sites in Streptomyces coelicolor MT1110 cultures grown in YEME plus 10% sucrose at 30?C up to early stationary phase. Chromatin extracted from formaldehyde treated cultures was incubated with anti HspR polyclonal antibodies and the DNA purified from anti HspR IP and mock IP samples was labelled with either Cy3 or Cy5- dCTP and hybridized in an indirect and direct type of microarray experiment onto SCO-Chip2-v1 and SCO-Chip2-v2 High Density IJISS arrays, developed in collaboration with Oxford Gene Technology.

2009-02-07 | E-MAXD-48 | 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