GEO DataSets

(Submitter supplied) Comparing wild type to strain lacking anti sigma factor ChrR. Aerobic conditions (30% oxygen). Keywords = SigmaE Keywords = ChrR Keywords = Oxygen stress Keywords: other

Organism:

Cereibacter sphaeroides; Cereibacter sphaeroides 2.4.1

Type:

Expression profiling by array

Dataset:

GDS1106

Platform:

GPL162

2 Samples

Download data: CEL, RPT

Expression profiling of anti-sigma factor ChrR deletion mutant grown aerobically in 30% oxygen. Binding of ChrR to sigma(E) blocks sigma(E)-dependent transcription.

Organism:

Rhodobacter sphaeroides; Rhodobacter sphaeroides 2.4.1

Type:

Expression profiling by array, count, 2 genotype/variation sets

Platform:

GPL162

Series:

GSE2219

2 Samples

Download data: CEL, RPT

(Submitter supplied) In Rhodobacter sphaeroides a transcriptional response to the reactive oxygen species singlet oxygen is controlled by the group IV sigma factor RpoE and the anti-sigma factor ChrR. In this study, we integrated various large datasets to identify genes within the singlet oxygen stress response that contain RpoE-dependent promoters within R. sphaeroides. Transcript pattern clustering and a RpoE-binding sequence model were used to predict candidate promoters that respond to singlet oxygen stress in R. more...

Organism:

Cereibacter sphaeroides 2.4.1

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL10463

6 Samples

Download data: GFF, TXT

(Submitter supplied) Oligo probes are 45bp in average, tiling the genome sequences with about 35-bp overlap between consecutive probes. Every other probe hybridizes to the reverse strand. Native array description file: 2007-06-20_R_sphaeroides_long85_v2.ndf Native array description file: 2007-06-20_R_sphaeroides_long85_v2.pos Protocol: See manufacturer's web site (www.nimblegen.com)

Organism:

Cereibacter sphaeroides 2.4.1

4 Series

21 Samples

Download data: NDF, POS

(Submitter supplied) Global transcriptome analyses at different stages of growth were applied to monitor growth phase-dependent gene expression in the alpha-proteobacterium Rhodobacter sphaeroides. Cultures with low aeration, which underwent strong changes in levels of dissolved oxygen during growth, were compared to aerated cultures, which showed little variation in levels of dissolved oxygen. Cells were in stationary phase for 12 h or for 57 h before dilution into fresh medium. more...

Organism:

Cereibacter sphaeroides 2.4.1

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17213

8 Samples

Download data: WIG

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

Organism:

Cereibacter sphaeroides 2.4.1

Type:

Expression profiling by array

Platforms:

GPL14782 GPL14796

7 Samples

Download data: GPR, TXT

(Submitter supplied) Transcriptional profiling of R. sphaeroides delta-cryB compared to control R. sphaeroides 2.4.1 under blue light, semiaerobic conditions.

Organism:

Cereibacter sphaeroides 2.4.1

Type:

Expression profiling by array

Platform:

GPL14796

2 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of R. sphaeroides delta-CryB comparing to control R. sphaeroides 2.4.1 under microaerobic conditions

Organism:

Cereibacter sphaeroides 2.4.1

Type:

Expression profiling by array

Platform:

GPL14782

3 Samples

Download data: GPR

(Submitter supplied) Transcriptional profiling of R. sphaeroides delta-cryB compared to control R. sphaeroides 2.4.1 under photo-oxidative stress, aerobic conditions.

Organism:

Cereibacter sphaeroides 2.4.1

Type:

Expression profiling by array

Platform:

GPL14796

2 Samples

Download data: TXT

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

Organism:

Cereibacter sphaeroides 2.4.1

Type:

Genome binding/occupancy profiling by genome tiling array; Expression profiling by array

Platforms:

GPL162 GPL10463

21 Samples

Download data: CEL, PAIR

(Submitter supplied) In this study, we performed expression profiling experiments to determine the respective regulons of RpoHI and RpoHII in Rhodobacter sphaeroides. We grew R. sphaeroides in aerobic conditions and induced either proteins ectopically and compared the global gene expression profiles.

Organism:

Cereibacter sphaeroides 2.4.1

Type:

Expression profiling by array

Platform:

GPL162

15 Samples

Download data: CEL

(Submitter supplied) In this study, we performed a ChIP-chip experiment to determine the respective regulons of RpoHI and RpoHII in Rhodobacter sphaeroides. We grew R. sphaeroides in aerobic conditions and induced either proteins ectopically and immuno-precipitated the regions of the genomic DNA interacting with the sigma factors.

Organism:

Cereibacter sphaeroides 2.4.1

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL10463

6 Samples

Download data: PAIR

(Submitter supplied) The facultatively photosynthetic bacterium Rhodobacter sphaeroides harbors an unusual LOV (light, oxygen, voltage) domain protein, RsLOV. While showing a characteristic photocycle, the protein misses a C - terminal output domain, similar to PpSB2 in Pseudomonas putida. Oxygen tension and light quantity are the two main responsible factors controlling the expression of photosynthesis genes in Rhodobacter sphaeroides. more...

Organism:

Cereibacter sphaeroides 2.4.1

Type:

Expression profiling by array

Platforms:

GPL14796 GPL14782

6 Samples

Download data: GPR, TXT

(Submitter supplied) Transcriptional profiling of R. sphaeroides Δlov compared to control R. sphaeroides 2.4.1 under singlet oxygen stress, aerobic conditions

Organism:

Cereibacter sphaeroides 2.4.1

Type:

Expression profiling by array

Platform:

GPL14796

2 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of R. sphaeroides Δlov compared to control R. sphaeroides 2.4.1 under blue light, semiaerobic conditions.

Organism:

Cereibacter sphaeroides 2.4.1

Type:

Expression profiling by array

Platform:

GPL14796

2 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of R. sphaeroides Δlov comparing to control R. sphaeroides 2.4.1 under microarobic conditions

Organism:

Cereibacter sphaeroides 2.4.1

Type:

Expression profiling by array

Platform:

GPL14782

2 Samples

Download data: GPR

(Submitter supplied) Exposure to oxygen and light generates photooxidative stress by the bacteriochlorophyll a mediated formation of singlet oxygen (1O2) in the facultative photosynthetic bacterium Rhodobacter sphaeroides. We have identified SorY as an sRNA, which is induced under several stress conditions and confers increased resistance against 1O2. SorY by direct interaction decreases the levels of takP mRNA, encoding a TRAP-T transporter. more...

Organism:

Cereibacter sphaeroides 2.4.1

Type:

Expression profiling by array

Platform:

GPL15457

2 Samples

Download data: TXT

(Submitter supplied) mRNA levels were measured in Rhodobacter sphaeroides 2.4.1 at 20% O2 and 0.5% O2, Rhodobacter sphaeroides 2.4.1 App11 (AppA-null), Rhodobacter sphaeroides 2.4.1 (pPNs) and PpsR mutant PPS2-4. The mRNA samples were prepared from cultures supplied with 20% O2, 1% CO2, and 79% N2, and grown in the dark to an OD of 0.18. The mRNA levels for each strain was measured three times. Keywords: repeat sample

Organism:

Cereibacter sphaeroides; Cereibacter sphaeroides 2.4.1

Type:

Expression profiling by array

Dataset:

GDS1709

Platform:

GPL162

15 Samples

Download data: CEL

Analysis of PpsR overexpressing and mutant strains grown at normal 20% oxygen. Expression examined in wild type cells at 0.5% oxygen. PpsR represses the transcription of a subset of biosynthetic genes in photosystem (PS) formation. Results suggest that PpsR is a master regulator of PS development.

Organism:

Rhodobacter sphaeroides; Rhodobacter sphaeroides 2.4.1

Type:

Expression profiling by array, count, 4 genotype/variation, 2 growth protocol, 3 other sets

Platform:

GPL162

Series:

GSE1515

15 Samples

Download data: CEL

(Submitter supplied) The sRNA StsR (formerly RSs0827) was first described as an sRNA induced upon iron starvation and was later demonstrated to be the most highly induced RNA in late stationary phase in the phototrophic Alphaproteobacterium R. sphaeroides. StsR is under control of RpoHI/RpoHII and therefore induced by multiple stress factors. To investigate the function of this sRNA on the hole transcriptome of R. sphaeroides we performed RNAseq with cultures of the exponential growth (6 h) phase, stationary growth phase (72 h / 144 h) and outgrowth phase. more...

Organism:

Cereibacter sphaeroides 2.4.1

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28141

24 Samples

Download data