GEO DataSets

(Submitter supplied) As part of a comprehensive post-genomic investigation of the model archaeon Halobacterium sp. NRC-1, we used whole genome DNA microarrays to compare transcriptional profiles of cells grown anaerobically via arginine fermentation versus cells either respiring aerobically in the presence of oxygen or anaerobically using trimethylamine N-oxide (TMAO) as a terminal electron acceptor.

Organism:

Halobacterium salinarum NRC-1

Type:

Expression profiling by array

Platform:

GPL15637

5 Samples

Download data: TXT

(Submitter supplied) Zymomonas mobilis ZM4 produces near theoretical yields of ethanol with high specific productivity and recombinant strains are able to ferment both C-5 and C-6 sugars. However, the genetic and physiological basis of the ZM4 response to various industrially-relevant stresses is poorly understood. In this study, the dynamics of ZM4 oxygen stress responses were elucidated by characterizing the transcriptomic and metabolomic profiles of aerobic and anaerobic fermentations using whole-genome microarray analysis and gas chromatography-mass spectrometry. more...

Organism:

Zymomonas mobilis

Type:

Expression profiling by array

Platform:

GPL6431

24 Samples

Download data: TXT

(Submitter supplied) Cytochrome oxydases and quinol monooxygenase were removed from the E. coli genome resulting in oxygen-independent physiology We used microarray profiling to identify perturbed metabolic or regulatory functionality resulting in the inability to undergo aerobic-anaerobic shift.

Organism:

Escherichia coli; Escherichia coli str. K-12 substr. MG1655

Type:

Expression profiling by array

Platform:

GPL3154

12 Samples

Download data: CEL

(Submitter supplied) Biofilm formation is considered the most important factor involved in pathogenicity of Staphylococcus epidermidis.We investigated the role of two-component signal transduction system (TCS) srrAB, which was up-regulated under micro-aerobic condition, in the growth and biofilm formation of S. epidermidis.AsrrA-deficient mutant (∆srrA) derived from S. epidermidis1457 (SE1457), exhibited dramatic reduction in growth and biofilm formation underboth aerobic and micro-aerobic conditions, and more sensitive to several different types of antimicrobial agents, H2O2 and SDS. more...

Organism:

Staphylococcus epidermidis

Type:

Expression profiling by array

Platform:

GPL13532

18 Samples

Download data: TXT

(Submitter supplied) This project was conducted by Nitin S. Baliga of the Halobacterium group at the Institute for Systems Biology in collaboration with Jocelyne Diruggiero of University of Maryland. Halobacterium NRC-1 cell pellets were resuspended in an isotonic buffer at a low density, placed on ice and exposed to 200J/m2 of UV-C irradiation, returned to the growth medium and allowed to recover at 42oC in dark (D) or light (L). more...

Organism:

Halobacterium salinarum NRC-1

Type:

Expression profiling by array

Platforms:

GPL982 GPL983

10 Samples

Download data: TIFF

(Submitter supplied) Investigation of whole genome gene expression level changes in Thermoplasma acidophilum cultured under aerobic and anaerobic conditions. The analysis are further described in Na Sun, Cuiping Pan, Stephan Nickell, Matthias Mann, Wolfgang Baumeister, and István Nagy, Quantitative proteome and transcriptome analysis of the archaeon Thermoplasma acidophilum cultured under aerobic and anaerobic conditions (submitted).

Organism:

Thermoplasma acidophilum DSM 1728

Type:

Expression profiling by array

Platform:

GPL10453

6 Samples

Download data: TXT

(Submitter supplied) Compare the physiological state between static, aerobic, and respiratory growth of Lactococcus lactis subsp. lactis CHCC2862 using whole genome transcriptomes. NOTE: the biological replicate array GSM243206 is dye-swapped relative to GSM202337 (unlike the two other biological replicate arrays GSM243203 and GSM24205). Keywords: Physiological response to aerobic and respiratory growth relative to static.

Organism:

Lactococcus lactis subsp. lactis

Type:

Expression profiling by array

Platform:

GPL5400

6 Samples

Download data: GPR, GPS, TIFF

(Submitter supplied) we performed time series microarray analyses to investigate transcriptome dynamics during the transition from anaerobic photosynthesis to aerobic respiration. Published on J. Bacteriol., 190 (1), 286-299, 2008. Major changes in gene expression profiles occurred in the initial 15 min after the shift from anaerobic-light to aerobic-dark conditions, with changes continuing to occur up to 4 hours postshift. more...

Organism:

Cereibacter sphaeroides 2.4.1

Type:

Expression profiling by array

Dataset:

GDS3296

Platform:

GPL162

24 Samples

Download data: CEL

Analysis of the facultative photosynthetic anaerobe Rhodobacter sphaeroides at various time points during the transition from anaerobic-light to aerobic-dark growth conditions. Results provide insight into molecular mechanisms underlying the transition from one homeostatic state to another.

Organism:

Rhodobacter sphaeroides 2.4.1

Type:

Expression profiling by array, count, 2 growth protocol, 6 time sets

Platform:

GPL162

Series:

GSE12269

24 Samples

Download data: CEL

(Submitter supplied) The genome-wide transcriptional responses of the strictly aerobic -proteobacterium Gluconobacter oxydans 621H to oxygen limitation, to the absence of the cytochrome bc1 complex, and to low pH were studied using DNA microarray analyses. Oxygen limitation caused expression changes of 486 genes, representing 20% of the chromosomal genes. Genes with an increased mRNA level included those for terminal oxidases, the cytochrome bc1 complex, transhydrogenase, two alcohol dehydrogenases, heme biosynthesis, PTS proteins, proteins involved in cyclic diGMP synthesis and degradation, two sigma factors, flagella and chemotaxis proteins, several stress proteins, and a putative exporter protein. more...

Organism:

Gluconobacter oxydans 621H

Type:

Expression profiling by array

Platform:

GPL14985

10 Samples

Download data: GPR

(Submitter supplied) Saccharomyces cerevisiae CEN.PK113-1A was grown in glucose-limited chemostat culture with 0%, 0.5%, 1.0%, 2.8% or 20.9% O2 in the inlet gas (D= 0.10 /h, pH5, 30C).

Organism:

Saccharomyces cerevisiae; Schizosaccharomyces pombe

Type:

Expression profiling by array

Platform:

GPL2529

22 Samples

Download data: CEL

(Submitter supplied) The capacity of respiring cultures of Saccharomyces cerevisiae to instantaneously switch to fast alcoholic fermentation upon a transfer to anaerobic sugar-excess conditions is a key characteristic of Saccharomyces cerevisiae in many of its industrial applications. This transition was studied by exposing aerobic glucose-limited chemostat cultures grown at a low specific growth rate to two simultaneous perturbations: oxygen depletion and relief of glucose limitation. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL90

13 Samples

Download data: CEL, CHP, EXP