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Links from GEO DataSets

Items: 18

1.

Aerobic and anaerobic transcriptional responses of wild type, hmp and norR to strains to NO in a chemostat

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Escherichia coli; Escherichia coli K-12
Type:
Expression profiling by array
Platform:
GPL534
20 Samples
Download data
Series
Accession:
GSE5098
ID:
200005098
2.

Aerobic NO-exposed Chemostat Comparison of Wt & hmp mutant Responses

(Submitter supplied) Escherichia coli strains MG1655 and an isogenic hmp::Tn5 mutant were grown in a New Brunswick Scientific Bioflow III Biofermentor under continuous culture (chemostat) conditions.. Cells were grown in defined media containing 8 mM glycerol as the sole and limiting source of energy and carbon. The working volume was 1 litre, and the dilution rate 0.1 h-1. For aerobic growth, the air-flow rate was 1 l/min, and the dissolved oxygen tension was maintained at 40% air saturation by measuring oxygen dissolved in the culture using a Broadley James D140 OxyProbe® electrode and automated adjustment of stirring rate. more...
Organism:
Escherichia coli K-12; Escherichia coli
Type:
Expression profiling by array
Platform:
GPL534
4 Samples
Download data
Series
Accession:
GSE5139
ID:
200005139
3.

Aerobic NO-exposed Chemostat Comparison of Wt & norR mutant Responses

(Submitter supplied) Escherichia coli strains MG1655 and an isogenic norR::Tn5 mutant were grown in a New Brunswick Scientific Bioflow III Biofermentor under continuous culture (chemostat) conditions.. Cells were grown in defined media containing 8 mM glycerol as the sole and limiting source of energy and carbon. The working volume was 1 litre, and the dilution rate 0.1 h-1. For aerobic growth, the air-flow rate was 1 l/min, and the dissolved oxygen tension was maintained at 40% air saturation by measuring oxygen dissolved in the culture using a Broadley James D140 OxyProbe® electrode and automated adjustment of stirring rate. more...
Organism:
Escherichia coli; Escherichia coli K-12
Type:
Expression profiling by array
Platform:
GPL534
4 Samples
Download data
Series
Accession:
GSE5137
ID:
200005137
4.

Anaerobic transcriptional responses of Escherichia coli to NO under defined chemostat conditions.

(Submitter supplied) Escherichia coli strain MG1655 was grown in a New Brunswick Scientific Bioflow III Biofermentor under continuous culture (chemostat) conditions. Cells were grown in defined media containing 54 mM glycerol as the sole and limiting source of energy and carbon. The working volume was 1 litre, and the dilution rate 0.1 h-1. In order to establish anaerobic growth, nitrogen was sparged through the chemostat medium prior to inoculation and throughout the course of the experiment at a rate of 0.2 l/min. more...
Organism:
Escherichia coli; Escherichia coli K-12
Type:
Expression profiling by array
Platform:
GPL534
4 Samples
Download data
Series
Accession:
GSE5076
ID:
200005076
5.

Aerobic transcriptional responses of Escherichia coli to NO under defined chemostat conditions.

(Submitter supplied) Escherichia coli strain MG1655 was grown in a New Brunswick Scientific Bioflow III Biofermentor under continuous culture (chemostat) conditions. Cells were grown in defined media containing 8 mM glycerol as the sole and limiting source of energy and carbon. The working volume was 1 litre, and the dilution rate 0.1 h-1. For aerobic growth, the air-flow rate was 1 l/min, and the dissolved oxygen tension was maintained at 40% air saturation by measuring oxygen dissolved in the culture using a Broadley James D140 OxyProbe® electrode and automated adjustment of stirring rate. more...
Organism:
Escherichia coli; Escherichia coli K-12
Type:
Expression profiling by array
Platform:
GPL534
4 Samples
Download data
Series
Accession:
GSE5075
ID:
200005075
6.

Transcriptional responses of Anaerobically grown Escherichia coli to GSNO under defined chemostat conditions.

(Submitter supplied) Escherichia coli strain MG1655 was grown in a New Brunswick Scientific Bioflow III Biofermentor under continuous culture (chemostat) conditions. Cells were grown in defined media containing 54 mM glycerol as the sole and limiting source of energy and carbon. The working volume was 1 litre, and the dilution rate 0.2 h-1. In order to establish anaerobic growth, nitrogen was sparged through the chemostat medium prior to inoculation and throughout the course of the experiment at a rate of 0.2 l/min. more...
Organism:
Escherichia coli; Escherichia coli K-12
Type:
Expression profiling by array
Platform:
GPL534
4 Samples
Download data
Series
Accession:
GSE2129
ID:
200002129
7.

Transcriptional responses of Escherichia coli to GSNO under defined chemostat conditions.

(Submitter supplied) Escherichia coli strain MG1655 was grown in a New Brunswick Scientific Bioflow III Biofermentor under continuous culture (chemostat) conditions. Cells were grown in defined media containing 54 mM glycerol as the sole and limiting source of energy and carbon. The working volume was 1 litre, and the dilution rate 0.2 h-1. For aerobic growth, the air-flow rate was 1 l/min, and the dissolved oxygen tension was maintained at 40% air saturation by measuring oxygen dissolved in the culture using a Broadley James D140 OxyProbe® electrode and automated adjustment of stirring rate. more...
Organism:
Escherichia coli; Escherichia coli K-12
Type:
Expression profiling by array
Platform:
GPL534
4 Samples
Download data
Series
Accession:
GSE2095
ID:
200002095
8.

Identification of GSNO response network in E. coli

(Submitter supplied) This project used transcriptomic analysis of the S-nitrosoglutathione (GSNO) response in E. coli, and associated regulatory mutants, to identified the molecular targets of and response to GSNO during aerobic growth in minimal media. Keywords: Comparative genomic response
Organism:
Escherichia coli
Type:
Expression profiling by array
Platform:
GPL5113
40 Samples
Download data
Series
Accession:
GSE8540
ID:
200008540
9.

A reassesment of the FNR regulon and the effects of nitrate,nitrite, narXL and narQP

(Submitter supplied) The fumarate and nitrate reductase regulator protein, FNR, is a global transcription factor that regulates major biochemical changes as Escherichia coli adapts from aerobic to anaerobic growth. The ability of an fnr mutant to grow anaerobically in the presence of trimethylamine-N-oxide (TMAO) as the terminal electron acceptor was exploited in microarray experiments designed to determine a minimum number of Escherichia coli K-12 MG1655 operons that are regulated directly by FNR. more...
Organism:
Escherichia coli
Type:
Expression profiling by array
Platforms:
GPL3051 GPL1246
55 Samples
Download data
Series
Accession:
GSE3591
ID:
200003591
10.

The NsrR regulon of Escherichia coli K-12

(Submitter supplied) Successful pathogens must be able to protect themselves against reactive nitrogen species generated either as part of host defence mechanisms, or as products of their own metabolism. The regulatory protein, NsrR (a member of the Rrf2 family of transcription factors), plays key roles in this stress response. Microarray analysis was carried out to reveal the regulon of NsrR. Keywords: Response to repressor titration and different growth conditions
Organism:
Escherichia coli
Type:
Expression profiling by array
Platform:
GPL3051
12 Samples
Download data: GPR
Series
Accession:
GSE6781
ID:
200006781
11.

Response of Porphyromonas gingivalis to nitrosative stress

(Submitter supplied) Transcriptional profiling of P. gingivalis cells comparing cells grown in anaerobic conditions to cells grown in anaerobic conditions and exposed to nitrite and to GSNO.
Organism:
Porphyromonas gingivalis
Type:
Expression profiling by array
Platform:
GPL15605
2 Samples
Download data: GPR
Series
Accession:
GSE38220
ID:
200038220
12.

Do globins in the microaerophile Campylobacter jejuni function in nitrosative stress tolerance under oxygen limitation?

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819; Campylobacter jejuni
Type:
Expression profiling by array
Platform:
GPL532
5 Samples
Download data: TXT
Series
Accession:
GSE38116
ID:
200038116
13.

Exposure of oxygen limited Campylobacter jejuni to 10 micromolar NOC-5 & NOC-7

(Submitter supplied) Batch cultures of Wild-type C. jejuni NCTC 11168 were grown in 200 ml volumes of Mueller-Hinton broth in 250 ml baffled flasks. Microaerophilic conditions were generated using a MACS-VA500 microaerophilic work station (10 % Oxygen, 10 % Carbon dioxide, 80 % Nitrogen) from Don Whitley Scientific, Ltd which also maintained the growth temperature at 42 ºC. When mid-exponential phase was reached 0.010 mM NOC-5 & NOC-7 was added to one of the cultures. more...
Organism:
Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819; Campylobacter jejuni
Type:
Expression profiling by array
Platform:
GPL532
4 Samples
Download data: TXT
Series
Accession:
GSE38115
ID:
200038115
14.

Exposure of microaerobic Campylobacter jejuni to 10 micromolar NOC-5 & NOC-7

(Submitter supplied) Two batch cultures of Wild-type C. jejuni NCTC 11168 were grown in 100 ml volumes of Mueller-Hinton broth in 250 ml baffled flasks. Microaerophilic conditions were generated using a MACS-VA500 microaerophilic work station (10 % Oxygen, 10 % Carbon dioxide, 80 % Nitrogen) from Don Whitley Scientific, Ltd which also maintained the growth temperature at 42 ºC. When mid-exponential phase was reached 0.010 mM NOC-5 & NOC-7 was added to one of the cultures. more...
Organism:
Campylobacter jejuni; Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819
Type:
Expression profiling by array
Platform:
GPL532
1 Sample
Download data: TXT
Series
Accession:
GSE38114
ID:
200038114
15.

E. coli Transcriptome Dynamics during the Transition from Anaerobic to Aerobic Conditions

(Submitter supplied) Escherichia coli is a metabolically versatile bacterium that is able to grow in the presence and absence of oxygen. Several previous transcript-profiling experiments have compared separate anaerobic and aerobic cultures. Here, for the first time, the process of adaptation was investigated by determining changes in transcript profiles when anaerobic steady-state cultures were perturbed by the introduction of air. more...
Organism:
Escherichia coli; Escherichia coli K-12
Type:
Expression profiling by array
Dataset:
GDS2364
Platform:
GPL534
4 Samples
Download data: TXT
Series
Accession:
GSE4735
ID:
200004735
16.
Full record GDS2364

Anaerobic to aerobic transition: time course

Analysis of anaerobic steady-state cultures at various time points up to 1 hour following perturbation by introduction of air. Results provide insight into the molecular dynamics underlying the adaptation to aerobic growth.
Organism:
Escherichia coli; Escherichia coli K-12
Type:
Expression profiling by array, log2 ratio, 4 time sets
Platform:
GPL534
Series:
GSE4735
4 Samples
Download data: TXT
DataSet
Accession:
GDS2364
ID:
2364
17.

FNR- vs WT in anoxic conditions

(Submitter supplied) Salmonella enterica var. Typhimurium (S. Typhimurium) is a Gram-negative, facultative intracellular pathogen that infects the intestinal tracts of humans and animals. In the host, S. Typhimurium encounters a wide range of oxygen concentrations going from oxic conditions in the stomach to near anoxic conditions in the distal sigmoid colon-rectal junction. In Escherichia coli, FNR (Fumarate Nitrate Reductase) is one of the main regulatory proteins involved in oxygen sensing and in controlling the transcription of the genes required for the aerobic/anaerobic transition.. more...
Organism:
Salmonella enterica subsp. enterica serovar Typhimurium; Salmonella
Type:
Expression profiling by array
Platform:
GPL1835
6 Samples
Download data
Series
Accession:
GSE3657
ID:
200003657
18.

Transcriptome response to nitrosative stress in Rhodobacter sphaeroides 2.4.1

(Submitter supplied) DNA microarray analysis was employed to investigate the transcriptome response to nitrosative stress in a non-denitrifying facultative photosynthetic bacterium Rhodobacter sphaeroides 2.4.1. We focused on the role played by a nitric oxide-response transcriptional regulator NnrR in the response. The transcriptome profiles of R. sphaeroides 2.4.1 and its nnrR mutant before and after exposure to nitrosating agents S-nitrosoglutathione (GSNO) or sodium nitroprusside (SNP) under semiaerobic conditions were analyzed.
Organism:
Cereibacter sphaeroides 2.4.1
Type:
Expression profiling by array
Platform:
GPL162
12 Samples
Download data: CEL
Series
Accession:
GSE33641
ID:
200033641
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