GEO DataSets

(Submitter supplied) Transcriptome analysis of C. glabrata mutants evolved for improved tolerance to H2O2.

Organism:

Nakaseomyces glabratus

Type:

Expression profiling by array

Platform:

GPL23894

8 Samples

Download data: GPR

(Submitter supplied) The goals of this study are to compare C. glabrata transcriptome profiling (RNA-seq) upon exposure to hydrogen peroxide in order to assess the correspondent response. The role of the transcription factor Tog1 is clarified through comparison of the transcrptome profiles of WT and Tog1 mutant cells. mRNA profiles of WT and ∆tog1 were generated by deep sequencing, in duplicate, using Illumina HiSeq. The sequence reads that passed quality filters were analyzed with TopHat followed by HTSeq. more...

Organism:

Nakaseomyces glabratus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26394

8 Samples

Download data: TXT

(Submitter supplied) In order to identify genes governed by Ada2, a transcription coactivator in C. glabrata, we compared the genome-wide expression profile in wild-type strain CBS138 and ada2 mutant via RNA sequencing. According to our analyses, 43 genes were down- and 443 genes were up-regulated in ada2 mutant when compared with the wild-type. The 43 down-regulated genes involved in ergosterol biosynthesis pathway (ERG6, ERG13), adhesin or adhesin-like genes (ICS2, AWP2, EPA7), heat shock genes (HSP30, SSB2) and other cellular functions. more...

Organism:

Nakaseomyces glabratus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19215

2 Samples

Download data: TXT

(Submitter supplied) To delineate the interaction of Candida glabrata with host immune cells, we performed genome-wide transcriptional profiling analysis on THP-1 macrophage-internalized wild-type and chromatin remodeling defective mutant (Cgrsc3-a∆ and Cgrtt109∆) yeasts. Genes implicated in ergosterol biosynthesis, and high-affinity iron uptake and homeostasis were found to be down-regulated in C. glabrata wild-type and mutant cells upon macrophage internalization. more...

Organism:

Nakaseomyces glabratus CBS 138; Nakaseomyces glabratus

Type:

Expression profiling by array

Platform:

GPL15745

16 Samples

Download data: TXT

(Submitter supplied) Transcriptome response of the yeasts C. glabrata and S. cerevisiae treated by an antifungal agent, benomyl Keywords: time course; stress response

Organism:

Saccharomyces cerevisiae; Nakaseomyces glabratus

Type:

Expression profiling by array

Platforms:

GPL6384 GPL6388

12 Samples

Download data: TXT

(Submitter supplied) To examine the response of Candida glabrata cells to iron-depleted and iron-repleted environmental conditions, transcriptional profiling analysis was carried out on wild-type and Cghog1∆ cells grown either in presence of BPS or ferric chloride. Genes involved in iron transport and homeostasis, oxidative phosphorylation, amino acid metabolic process and chromatin silencing were found to be differentially regulated.

Organism:

Nakaseomyces glabratus CBS 138

Type:

Expression profiling by array

Platform:

GPL19118

12 Samples

Download data: TXT

(Submitter supplied) To examine the role of a glycosylphosphatidylinositol-linked aspartyl protease, CgYps1, in the regulation of pH homeostasis in Candida glabrata, transcriptional profiling analysis was carried out on wild-type and Cgyps1∆ cells grown in YNB medium (pH 5.5) and in YNB medium adjusted to pH 2.0. Genes involved in carbohydrate and amino acid metabolism, protein folding and stress response pathways were found to be differentially regulated in response to acidic environment in both the strains. more...

Organism:

Nakaseomyces glabratus; Nakaseomyces glabratus CBS 138

Type:

Expression profiling by array

Platform:

GPL10927

8 Samples

Download data: TXT

(Submitter supplied) Methodology: RNA was extracted using Hi-PurA yeast RNA purification kit from biofilm and planktonic growth phase and sequenced by Illumina Hi-Seq 2500 and platform with 250bp paired chemistry and analysed by IsoformSwitchAnalyseR tool of bioconductor Results: Differential transcript expression (DTE) and differential transcript utilization (DTU) of C. glabrata showed that it utilized 292 significant transcripts isoforms during biofilm formation via isoform switching process. more...

Organism:

Nakaseomyces glabratus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25492

6 Samples

Download data: R, XLSX

(Submitter supplied) To determine the effect of lack of two Histone H4 genes, CgHHF1 and CgHHF2, on global transcriptional profile, and on transcriptional response towards MMS exposure, RNA-Seq analysis was conducted on log-phase grown Candida glabrata wild-type and Cghhf1∆2∆ cells in the presence and absence of MMS. Comparative transcriptome analysis of wild-type and Cghhf1∆2∆ cells displayed deregulation of 303 genes due to the loss of CgHHF1 and CgHHF2 genes. more...

Organism:

Nakaseomyces glabratus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25492

8 Samples

Download data: TXT

(Submitter supplied) Transcriptome analysis of isolated mutants using the method Visualizing Evolution in Real-Time (VERT) for the study of n-butanol tolerance. The samples were isolated from an evolution experiment picking samples at different times based in the evolution dynamics obtained with VERT. Mutants were grown in chemostats at 0.8% (v/v) of n-butanol and compared with the expression of wild-type to the same concentration of solvent.

Organism:

Escherichia coli; Escherichia coli K-12

Type:

Expression profiling by array

Platform:

GPL8984

24 Samples

Download data: GPR

(Submitter supplied) We conducted a network-based analysis of the Aft2 transcription factor involved in iron starvation response in Candida glabrata.

Organism:

Nakaseomyces glabratus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL22777

3 Samples

Download data: TXT

(Submitter supplied) We use adaptive laboratory evolution to generate strains which tolerate high levels of the redox cycling compound paraquat, which produces reactive oxygen species (ROS). We combine resequencing, iModulon analysis of the transcripome, and metabolic models to elucidate six interacting stress tolerance mechanisms: 1) modification of transport, 2) activation of ROS stress responses, 3) use of ROS-sensitive iron regulation, 4) motility, 5) broad transcriptional reallocation toward growth, and 6) metabolic rewiring to decrease NADH production. more...

Organism:

Escherichia coli str. K-12 substr. MG1655

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24659

84 Samples

Download data: CSV

(Submitter supplied) E. coli frequently encounters oxidative stress both in its natural environment or in industrial biotechnology. Elucidating the mechanisms behind tolerance to oxidative stress would be beneficial for understanding pathogenesis as well as improving production strain fitness. We make use of adaptive laboratory evolution to develop two strains of E. coli which exhibit 500% increased tolerance to paraquat stress compared to wild type. more...

Organism:

Escherichia coli

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21433

22 Samples

Download data: CSV, TXT