GEO DataSets

(Submitter supplied) Streptomyces has the largest repertoire of natural product biosynthetic gene clusters (BGCs), yet developing a universal engineering strategy for each Streptomyces species is challenging. Given that some Streptomyces species have larger BGC repertoires than others, we hypothesized that a set of genes co-evolved with BGCs to support biosynthetic proficiency must exist in those strains, and that their identification may provide universal strategies to improve the productivity of other strains. more...

Organism:

Streptomyces griseus; Streptomyces rapamycinicus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL27559 GPL34215

12 Samples

Download data: CSV

(Submitter supplied) We performed ribosome profiling which is the deep-sequencing of mRNA fragments protected by translating ribosome for two Streptomyces species through different growth phases to provide the translatome data

Organism:

Streptomyces griseus; Streptomyces venezuelae

Type:

Expression profiling by high throughput sequencing; Other

Platforms:

GPL27559 GPL27560

16 Samples

Download data: TXT

(Submitter supplied) To identify genes affected by atuA mutation in solid culture, transcriptome profiles between wild-type and delta atuA mutant strains were analyzed.

Organism:

Streptomyces griseus

Type:

Expression profiling by array

Platform:

GPL5473

2 Samples

Download data: TXT

(Submitter supplied) AdpA is a global transcriptional activator triggering morphological differentiation and secondary metabolism in Streptomyces griseus. AdpA influences expression of >1,000 genes, but the overall picture of AdpA regulon has been obscure. Here, we took snapshots of distribution of AdpA across the chromosome in living S. griseus cells by ChIP/ChAP-seq analysis. In both liquid and solid cultures, AdpA bound to similar >1,200 sites, which were located on not only putative regulatory regions (65 %) but also regions (35 %) that appeared not to affect transcription. more...

Organism:

Streptomyces griseus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL14940

3 Samples

Download data: SAM

(Submitter supplied) AdpA is a global transcriptional activator triggering morphological differentiation and secondary metabolism in Streptomyces griseus. AdpA influences expression of >1,000 genes, but the overall picture of AdpA regulon has been obscure. Here, we took snapshots of distribution of AdpA across the chromosome in living S. griseus cells by ChIP/ChAP-seq analysis. In both liquid and solid cultures, AdpA bound to similar >1,200 sites, which were located on not only putative regulatory regions (65 %) but also regions (35 %) that appeared not to affect transcription. more...

Organism:

Streptomyces griseus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL14940

2 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Streptomyces griseus

Type:

Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL5473 GPL14940

9 Samples

Download data: SAM, TXT

(Submitter supplied) To identify genes regulated by AdpA in liquid culture, transcriptome profiles between delta adpA strains with his-adpA and control delta adpA strains were analyzed.

Organism:

Streptomyces griseus

Type:

Expression profiling by array

Platform:

GPL5473

1 Sample

Download data: TXT

(Submitter supplied) To identify genes regulated by AdpA in solid culture, transcriptome profiles between delta adpA strains with his-adpA and control delta adpA strains were analyzed.

Organism:

Streptomyces griseus

Type:

Expression profiling by array

Platform:

GPL5473

3 Samples

Download data: TXT

(Submitter supplied) To identify genes regulated by SigD, transcriptome profiles between wild type strain and sigD mutant with pI486-sigD, in which sigD level is low compared to wild type strain, were analyzed.

Organism:

Streptomyces griseus

Type:

Expression profiling by array

Platform:

GPL5473

1 Sample

Download data: TXT

(Submitter supplied) Comparative hybridization of wild type versus AdpA deficient mutant grown on SMM medium

Organism:

Streptomyces griseus; Streptomyces griseus subsp. griseus NBRC 13350

Type:

Expression profiling by array

Platform:

GPL5473

3 Samples

Download data: TXT

(Submitter supplied) Two component sensor-response regulator systems (TCSs) are very common in the genomes of the Streptomyces species that have been fully sequenced to date. It has been suggested that this large number is an evolutionary response to the variable environment that Streptomyces encounter in soil. Notwithstanding this, TCSs are also more common in the sequenced genomes of other Actinomycetales when these are compared to the genomes of most other eubacteria. more...

Organism:

Kitasatospora aureofaciens; Streptosporangium roseum; Streptantibioticus cattleyicolor; Streptomyces venezuelae; Streptomyces coelicolor A3(2); Streptomyces exfoliatus; Streptomyces tanashiensis; Streptomyces bikiniensis; Streptomyces clavuligerus; Streptomyces rochei; Streptomyces virginiae; Streptomyces antibioticus; Streptomyces fradiae; Streptomyces griseus; Streptomyces microflavus; Streptomyces maritimus

Type:

Genome variation profiling by array

Platform:

GPL7637

15 Samples

Download data: XLS

(Submitter supplied) Comparative hybridization of afsA deficient mutant versus afsA deficient mutant after A-factor addition

Organism:

Streptomyces griseus; Streptomyces griseus subsp. griseus NBRC 13350

Type:

Expression profiling by array

Platform:

GPL5473

24 Samples

Download data

(Submitter supplied) Comparative hybridization of wild type versus AdpA deficient mutant Keywords: Cell type comparison

Organism:

Streptomyces griseus subsp. griseus NBRC 13350; Streptomyces griseus

Type:

Expression profiling by array

Platform:

GPL5473

4 Samples

Download data: TXT

(Submitter supplied) Oligonucleotides are consolidated into 384-well plates, lyophilized by speed-Vac, and resuspended in 3x SSC to a printing concentration of 30uM. Oligos are printed on aminosilane slides. Microspot 10K quill pins (Biorobotics) in a 48-pin tool were used to deposit <0.5 nL per spot onto the slide. The resulting microarrays have a 8 x 4 subgrid layout with 420 spots per subgrid, each spot having approximate diameter and pitch of 90 µm and 190µm, respectively. more...

Organism:

Streptomyces griseus

8 Series

38 Samples

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