GEO DataSets

(Submitter supplied) The formation of electroactive biofilms is a crucial process for the generation of bioelectricity and bioremediation. G. sulfurreducens is a dissimilatory metal-reducing microorganism that can couple oxidation of organic matter with extracellular electron transfer to different insoluble electron acceptors. It has the capability to form biofilms in insoluble metal oxides and electroconductive biofilms in electrodes in bioelectrochemical systems. more...

Organism:

Geobacter sulfurreducens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33036

8 Samples

Download data: TXT

(Submitter supplied) Geobacter sulfurreducens is a widely explored microorganism recognized by its metabolic versatility able to reduce a number of external electron acceptors. In the present study the capacity of this strain to reduce nitrate was evaluated along with its transcriptomic profile under nitrate-reducing conditions and the catalytic role of Pd nanoparticles on the reductive pathway. Results demonstrated that G. more...

Organism:

Geobacter sulfurreducens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29367

10 Samples

Download data: TXT

(Submitter supplied) The expression profile of adapted G. sulfurreducens strain T9-1 grown with 40 mM fumarate without any other substrate versus the expression profile of G. sulfurreducens PCA (wild type) grown with 10 mM acetate and 40 mM fumarate

Organism:

Geobacter sulfurreducens PCA

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30660

6 Samples

Download data: TXT

(Submitter supplied) Geobacter sulfurreducens has a complex metabolism that adapts to use electron acceptors at a wide range of redox potentials. In this study, we used RNA-seq to identify genes associated with electron transfer pathways at different redox potentials. By correlating the RNA-seq data with cyclic voltammetry, we associated several multiheme cytochromes with specific electron transfer pathways.

Organism:

Geobacter sulfurreducens PCA

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32116

21 Samples

Download data: CSV, XLSX

(Submitter supplied) Our study revealed a synergistic effect between biological nitrogen fixation and current generation by G. sulfurreducens, providing a green nitrogen fixation alternative through shifting the nitrogen fixation field from energy consumption to energy production and having implications for N-deficient wastewater treatment.

Organism:

Geobacter sulfurreducens KN400

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30823

6 Samples

Download data: TXT

(Submitter supplied) The Geobacter species evolved respiratory versatility to utilize a wide range of terminal electron acceptors. To explore this adaptive mechanism, Fe(III) citrate, hydrous ferric oxide, and fumarate were selected as electron acceptors, and the methylome and metabolome of Geobacter sulfurreducens PCA grown on each electron acceptor were investigated via third-generation, single-molecule real-time DNA sequencing.Results showed that the patterns of 4-methylcytosine (m4C) and 6-methyladenine (m6A) modification were all varied in different electron acceptor cultures. more...

Organism:

Geobacter sulfurreducens

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL29091

3 Samples

Download data: TXT

(Submitter supplied) Integration host factor (IHF) is a widely distributed small heterodimeric protein member of the bacterial Nucleoid-Associated Proteins (NAPs), implicated in multiple DNA regulatory process. IHF recognizes a specific DNA sequence and induces a large bend of the nucleic acid. IHF function has been mainly linked with regulation of s54-dependent promoters, where IHF commonly recognizes a DNA sequence between the enhancer-binding region and the promoter, facilitating a close contact between the upstream bound activator and the promoter bound, RNA polymerase. more...

Organism:

Geobacter sulfurreducens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29367

6 Samples

Download data: TXT

(Submitter supplied) We gained insights into the environmental controls of Geobacter activities in cobamide-driven microbiomes by investigating the adaptive responses of the model representative G. sulfurreducens to growth and reproduction in the presence of CoII. Consistent with environmental exposure, we demonstrate high CoII resistance in this species and describe from genomic rand transcriptomic data multiple pathways for protein and DNA repair, cell envelope modifications, and biofilm formation that allow the cells to effectively cope with CoII stress. more...

Organism:

Geobacter sulfurreducens PCA

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29085

4 Samples

Download data: CSV, XLS

(Submitter supplied) Geobacter sulfurreducens is capable of reducing Pd(II) to Pd(0) using pyruvate as an electron donor; however, the biochemical and genetic mechanisms involved in this process have not been described. In this work, we carried out transcriptome profiling analyes to identify genes involved in Pd(II) reduction in this bacteria. Our results showed that 254 genes were upregulated while 142 were downregulated during Pd(II) reduction. more...

Organism:

Geobacter sulfurreducens PCA

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24894

4 Samples

Download data: TXT

(Submitter supplied) Geobacter sulfurreducens was originally considered a strict anaerobe. However, this bacterium was later shown to not only tolerate but also to use oxygen as terminal electron acceptor. Research performed has so far only revealed the general ability of G. sulfurreducens to reduce oxygen, but the oxygen consumption rate has not been quantified, nor has evidence been provided as to how the bacterium achieves oxygen consumption. more...

Organism:

Geobacter sulfurreducens

Type:

Expression profiling by array

Platform:

GPL26004

12 Samples

Download data: TXT

(Submitter supplied) Gene expression in a Geobacter sulfurreducens strain overexpressing the two-component system GsuTCS1

Organism:

Geobacter sulfurreducens

Type:

Expression profiling by array

Platform:

GPL4897

6 Samples

Download data: GPR

(Submitter supplied) Anode-associated multi-species exoelectrogenic biofilms are essential to the function of bioelectrochemical systems (BESs). The investigation of electrode-associated biofilms is critical to advance understanding of the function of individual members within communities that thrive using an electrode as the terminal electron acceptor. This study focusses on the analysis of a model biofilm community consisting of Shewanella oneidensis, Geobacter sulfurreducens and Geobacter metallireducens. more...

Organism:

Shewanella oneidensis; Geobacter metallireducens; Geobacter sulfurreducens

Type:

Expression profiling by high throughput sequencing

4 related Platforms

18 Samples

Download data: TXT

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

Organism:

Geobacter sulfurreducens PCA

Type:

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

Platform:

GPL9112

16 Samples

Download data: GFF, PAIR

(Submitter supplied) Fur is a transcriptional regulator whose activity is dependent on Fe(II) concentrations. Chromatin immunoprecipitation (ChIP) coupled to microarray analysis allowed for the identification of Fur binding sites within the G. sulfurreducens genome.

Organism:

Geobacter sulfurreducens PCA

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL9112

7 Samples

Download data: GFF, PAIR

(Submitter supplied) G. sulfurreducens was cultured on a variety of different iron concentrations and differential expression analysis was used to identify the iron stimulon.

Organism:

Geobacter sulfurreducens PCA

Type:

Expression profiling by genome tiling array

Platform:

GPL9112

9 Samples

Download data: GFF, PAIR

(Submitter supplied) The conductive pili of Geobacter sulfurreducens are essential for optimal extracellular electron transfer to Fe(III) and long-range electron transport through current-producing biofilms. The KN400 strain of G. sulfurreducens reduces poorly crystalline Fe(III) oxide more rapidly than the more extensively studied DL-1 strain. Deletion of the gene for PilA, the structural pilin protein, in strain KN400 inhibited Fe(III) oxide reduction. more...

Organism:

Geobacter sulfurreducens KN400

Type:

Expression profiling by array

Platform:

GPL17282

8 Samples

Download data: CALLS, PAIR

(Submitter supplied) We applied a ChIP-chip approach to elucidate the binding profiles of sigma factors (RpH, RpoN and RpoS) experimentally under different growth conditions. This technique localizes DNA fragments within DNA-protein complexes enriched by chromatin immunoprecipitation using high-density oligonucleotide tilling arrays.

Organism:

Geobacter sulfurreducens PCA

Type:

Expression profiling by genome tiling array

Platform:

GPL9112

10 Samples

Download data: PAIR

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

Organism:

Geobacter sulfurreducens

Type:

Expression profiling by array

Platform:

GPL4895

12 Samples

Download data: GPR, TXT

(Submitter supplied) Whole-genome DNA microarray analysis of Geobacter sulfurreducens cells grown on Fe(III)-oxide or Mn(IV)-oxide versus cells grown on soluble Fe(III) citrate indicated that there were significant differences in transcription patterns during growth on the insoluble metal oxides compared to growth on soluble Fe(III). Many of the genes that appeared to be up-regulated during growth on the metal hydroxides were involved in electron transport. more...

Organism:

Geobacter sulfurreducens

Type:

Expression profiling by array

Platform:

GPL4895

6 Samples

Download data: GPR, TXT

(Submitter supplied) Whole-genome DNA microarray analysis of Geobacter sulfurreducens cells grown on Fe(III)-oxide or Mn(IV)-oxide versus cells grown on soluble Fe(III) citrate indicated that there were significant differences in transcription patterns during growth on the insoluble metal oxides compared to growth on soluble Fe(III). Many of the genes that appeared to be up-regulated during growth on the metal hydroxides were involved in electron transport. more...

Organism:

Geobacter sulfurreducens

Type:

Expression profiling by array

Platform:

GPL4895

6 Samples

Download data: GPR, TXT