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Links from GEO DataSets

Items: 12

1.

In vivo recruitment analysis and a mutant strain without any group 2 σ factors reveal roles of different σ factors in cyanobacteria

(Submitter supplied) In eubacteria, replacement of one σ factor in the RNA polymerase (RNAP) holoenzyme by another one changes the transcription pattern. Cyanobacteria are eubacteria characterized by oxygenic photosynthesis and they typically encode numerous group 2 σ factors that closely resemble the essential primary σ factor. A mutant strain of the model cyanobacterium Synechocystis sp. PCC 6803 without functional group 2 σ factors (named as ΔsigBCDE) could not acclimate to heat, high salt, or bright light stress but in standard conditions ΔsigBCDE grew only 9% slower than the control strain. more...
Organism:
Synechocystis sp. PCC 6803
Type:
Expression profiling by array
Platform:
GPL17595
7 Samples
Download data: TXT
Series
Accession:
GSE69981
ID:
200069981
2.

Gene expression changes in group 2 sigma factor mutant, ΔsigCDE, in standard growth conditions and after high-light treatment

(Submitter supplied) Adjustment of gene expression during acclimation to stress conditions, such as bright light, in the cyanobacterium Synechocystis sp. PCC 6803 depends on four group 2 σ factors (SigB, SigC, SigD, SigE). A ∆sigCDE strain containing the stress responsive SigB as an only functional group 2 σ factor appears twice as resistant to photoinhibition of photosystem II (PSII) as the control strain. Microarray analyzes of the ∆sigCDE strain indicated that 77 genes in standard conditions and 79 genes in high light were differently expressed compared to the control strain. more...
Organism:
Synechocystis sp. PCC 6803
Type:
Expression profiling by array
Platform:
GPL17595
13 Samples
Download data: TXT
Series
Accession:
GSE50060
ID:
200050060
3.

Group 2 Sigma Factors Are Central Regulators of Oxidative Stress Acclimation in Cyanobacteria

(Submitter supplied) The model cyanobacterium Synechocystis sp. PCC encodes nine different σ factors. SigA is the essential primary σ factor that is mainly responsible for expression of housekeeping genes during normal growth. Group 2 σ factors are non-essential in standard conditions, and actually all single, double, triple and quadruple inactivation strains of group 2 factors grow well in standard growth conditions. The roles of group 2 σ factors in oxidative stress acclimation were studied using the ΔsigBCDE strain of Synechocystis sp. more...
Organism:
Synechocystis sp. PCC 6803
Type:
Expression profiling by array
Platform:
GPL17595
19 Samples
Download data: TXT
Series
Accession:
GSE117478
ID:
200117478
4.

The ω subunit of RNA polymerase is essential for thermal acclimation of the Cyanobacterium Synechocystis sp. PCC 6803

(Submitter supplied) The rpoZ gene encodes the small ω subunit of RNA polymerase (RNAP). A ∆rpoZ strain of the cyanobacterium Synechocystis sp. PCC 6803 grew well in standard conditions (constant illumination at 40 µmol photons m-2s-1; 32 °C; ambient CO2) but was heat sensitive and died at 40 °C. In the control strain , 71 genes were at least two-fold up-regulated and 91 genes down-regulated after a 24-h treatment at 40 °C, while in ∆rpoZ 394 genes responded to heat. more...
Organism:
Synechocystis sp. PCC 6803
Type:
Expression profiling by array
Platform:
GPL17595
13 Samples
Download data: TXT
Series
Accession:
GSE59451
ID:
200059451
5.

Roles of close homologues SigB and SigD in heat and bright light acclimation of the cyanobacterium Synechocystis sp. PCC 6803

(Submitter supplied) Acclimation of cyanobacterium Synechocystis sp. PCC6803 to suboptimal conditions is largely dependent on adjustments of gene expression, which is highly controlled by the σ factor subunits of RNA polymerase (RNAP). The SigB and SigD σ factors are close homologues. Here we show that sigB and sigD genes are both induced in bright light and high temperature stresses. Comparison of transcriptomes of the control strain (CS), ΔsigB, ΔsigD, ΔsigBCE (SigD is an only functional group 2 σ factor), and ΔsigCDE (SigD is an only functional group 2 σ factor) strains in standard, bright light and high temperature conditions revealed that the SigB and SigD factors regulate different set of genes, and that SigB and SigD regulons are highly dependent on stress conditions. more...
Organism:
Synechocystis sp. PCC 6803
Type:
Expression profiling by high throughput sequencing
Platform:
GPL31128
45 Samples
Download data: TSV
Series
Accession:
GSE192357
ID:
200192357
6.

The omega subunit of the RNA polymerase core directs transcription efficiency in cyanobacteria

(Submitter supplied) The catalytic core of the RNA polymerase of most eubacteria is composed of two α subunits and β, β’ and ω subunits. In Escherichia coli, the ω subunit (encoded by the rpoZ gene) has been suggested to assist β’ during RNA polymerase core assembly. The function of the ω subunit is particularly interesting in cyanobacteria because the cyanobacterial β’ is split to N-terminal γ and C-terminal β’ subunits. more...
Organism:
Synechocystis sp. PCC 6803
Type:
Expression profiling by array
Platform:
GPL17595
7 Samples
Download data: TXT
Series
Accession:
GSE51647
ID:
200051647
7.

Transcriptome analysis of the microalgae Synechocystis sp. PCC 6803 and mechanisms of photoinhibition tolerance under extreme high light conditions

(Submitter supplied) To investigate acclimation mechanisms employed under extreme high light conditions, gene expression analysis was performed using the model microalgae Synechocystis sp. PCC 6803 (PCC 6803) cultured under various light intensities. From the low to the mid light conditions, the expression of genes related to light harvesting systems was repressed, whereas that of CO2 fixation and of D1 protein turnover-related genes was induced. more...
Organism:
Synechocystis sp. PCC 6803
Type:
Expression profiling by array
Platform:
GPL24690
22 Samples
Download data: TXT
Series
Accession:
GSE111408
ID:
200111408
8.

Comparison between GT and SigE overexpressed strains of cyanobacteria

(Submitter supplied) SigE is a global regulator for sugar catabolism in a unicelluar cyanobacterium Synechocystis sp. PCC6803. We constructed SigE-overexpressing strain, named GOX50, by introducing the sigE genes fusing psbAII promoter by homologous recombination. The transcript profiles of parental wild-type strain GT and GOX50 were compared by microarray CyanoChip (Takrara bio.). Experiments were performed by three times with biologically independent RNA. more...
Organism:
Synechocystis sp. PCC 6803; Cyanobacteriota
Type:
Expression profiling by array
Platform:
GPL13193
6 Samples
Download data: TXT
Series
Accession:
GSE27406
ID:
200027406
9.

Slr0643, a S2P Homolog, Is Essential for Acid Acclimation in Cyanobacterium Synechocystis sp. PCC 6803

(Submitter supplied) Every cyanobacterial species contains gene encoding site-2-protease (S2P) homolog. The studied prokaryotic S2P homologs play essential roles in regulating stress response through intramembrane proteolysis of membrane-bound anti-sigma factors. Here, gene of Slr0643, one of four S2P homologs in Synechocystis sp. PCC 6803, was insertionally disrupted to explore its physiological role. Only a partially segregated mutant was obtained, indicating its indispensability for growth. more...
Organism:
Synechocystis sp. PCC 6803
Type:
Expression profiling by array
Platform:
GPL15530
24 Samples
Download data: XLS
Series
Accession:
GSE37747
ID:
200037747
10.

SuperSeries for the study of expression analysis of the T. thermophilus sigE (TTHB211)

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Thermus thermophilus HB8
Type:
Expression profiling by array
Platform:
GPL4902
35 Samples
Download data: CEL
Series
Accession:
GSE8781
ID:
200008781
11.

Comparative expression analysis between sigE (TTHB211) deletion mutant and wild-type of T. thermophilus HB8

(Submitter supplied) We observed the expression profile of the total mRNA of sigE (TTHB211) deletion mutant of Thermus thermophilus HB8 strain grown in a rich (TT) medium at 70oC compared with that of wild type. Keywords: cell type comparison
Organism:
Thermus thermophilus HB8
Type:
Expression profiling by array
Platform:
GPL4902
6 Samples
Download data: CEL
Series
Accession:
GSE8780
ID:
200008780
12.

Time course of the mRNA expression in wild-type Thermus thermophilus HB8 strain grown on a rich medium (labeling:ENZO)

(Submitter supplied) We observed the expression profile of the total mRNA of wild-type Thermus thermophilus HB8 strain grown in a rich (TT) medium at 70oC. Keywords: time course
Organism:
Thermus thermophilus HB8
Type:
Expression profiling by array
Platform:
GPL4902
30 Samples
Download data: CEL
Series
Accession:
GSE7165
ID:
200007165
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