GEO DataSets

(Submitter supplied) Transcriptional profiling of C. albicans in biofilms after 90 min of adherence or 8 h, 24 h, or 48 h of development; compared to C. albicans in suspension cultures grown to log at 30 deg or 37 deg or grown to stationary phase at 30 deg or collected from the unadhered cells in the biofilm assay.

Organism:

Candida albicans

Type:

Expression profiling by array

Platform:

GPL13830

29 Samples

Download data: GPR, TIFF, TXT

(Submitter supplied) Candida albicans can stochastically switch between two phenotypes, white and opaque. Opaque cells are the sexually competent form of C. albicans and therefore undergo efficient polarized growth and mating in the presence of pheromone. In contrast, white cells cannot mate, but are induced - under a specialized set of conditions - to form biofilms in response to pheromone. In this work, we compare the genetic regulation of such "pheromone-stimulated" biofilms with that of "conventional" C. more...

Organism:

Candida albicans

Type:

Expression profiling by array

Platform:

GPL16385

17 Samples

Download data: GPR

(Submitter supplied) Biofilm formation on medically implanted devices by Candida albicans poses a significant clinical challenge. Here we compared biofilm-associated gene expression in two clinical C. albicans isolates, SC5314 and WO-1, to identify shared gene regulatory responses that may be functionally relevant. Among the 50 genes most highly expressed in biofilms relative to planktonic (suspension-grown) cells, we were able to recover insertion mutations in 25 genes. more...

Organism:

Candida albicans

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL16787 GPL15645

16 Samples

Download data: TXT

(Submitter supplied) To delineate the functional role of ZCF32 in Candida albicans biology, we carried out the genome wide expression analysis of wild-type and zcf32 null mutants by global expression array. We analysed the gene expression profiles of YPK102/1 and YPK102/2 and the parent wild type (SC5314) strain grown in YPD liquid medium at 30°C till the start of the stationary phase. In the microarray analysis, a total of 607 genes were found to be differentially expressed (fold change < 1.5 at p-value < 0.05) between the wild type and two zcf32 null mutants. more...

Organism:

Candida albicans

Type:

Expression profiling by array

Platform:

GPL21258

4 Samples

Download data: TXT

(Submitter supplied) Similar to S. cerevisiae Rta1 (role in 7-aminocholesterol resistance) and Rsb1 (flippase); putative drug-responsive regulatory site; induced by fluphenazine, estradiol, ketoconazole, caspofungin; rat catheter biofilm induced

Organism:

Candida albicans

Type:

Expression profiling by array

Platform:

GPL21450

6 Samples

Download data: TXT

(Submitter supplied) ILS1 mutated Candida albicans was unable to grow as yeast-phase cells but was capable of producing a tridimensional biofilm structure in spite of reduced metabolic activity. This biofilm still relied on the classical biofilm genes, while it differentially induced groups of genes involved in adhesion, protein synthesis, cell wall organization, and protein folding. Although the conditional mutant repressed genes annotated for morphology and homeostasis processes affecting morphology and metabolism, the dynamic cell growth enabled the construction of a complex biofilm community independent of ILS1.

Organism:

Candida albicans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23041

6 Samples

Download data: TSV

(Submitter supplied) Transcriptional profiling of Candida albicans cells grown under planktonic and biofilm-inducing conditions, comparing SN76 and sfl1Δ/sfl1Δ strains. Goal was to study the effect of SFL1 deletion on the transcriptomic profile of C. albicans planktonic and biofilm cells under acidic conditions, in order to reveal the function of the Sfl1 transcription factor in C. albicans biofilm development.

Organism:

Candida albicans

Type:

Expression profiling by array

Platform:

GPL22275

6 Samples

Download data: TXT

(Submitter supplied) Candida albicans can form biofilm on the surface of indwelling medical devices. Biofilm formation is an importanat clinical problem because biofilm-grown cells have decreased susceptibility to antifungal agents. Microarray technology was used to identify changes in gene expression during biofilm development. Two biofilm substrates (denture and catheter) were used, with two C. albicans strains tested on each substrate. more...

Organism:

Candida albicans

Type:

Expression profiling by array

Platform:

GPL5147

96 Samples

Download data: GPR

(Submitter supplied) To understand the biological relevance of the role played by the HHT1 histone H3 variant in C. albicans, we performed a transcriptome analysis of the mutant by global gene expression array analysis. We analyzed gene expression profile of the mutant in strains LR107 and LR108 (hht1∆/hht1∆) and the parent wild type (SC5314) strain grown in YPD liquid medium at 30°C. In the microarray analysis, a total of 1222 genes were found to be expressed significantly different (fold change < 1.5 at p-value < 0.05) between wild type and two hht1 null mutants. more...

Organism:

Candida albicans

Type:

Expression profiling by array

Platform:

GPL20624

8 Samples

Download data: TXT

(Submitter supplied) The planktonic versus biofilm gene expression arrays were performed in a/alpha cell types. Gene expression arrays were performed on planktonic vs biofilm cells grown in Spider medium at 37C. Normalized data is reported in matrix.

Organism:

Candida albicans

Type:

Expression profiling by array

Platform:

GPL13830

2 Samples

Download data: GPR

(Submitter supplied) The Zap1 ChIP-chips were performed in a/alpha cell types using C-terminally Myc-tagged proteins and Myc antibodies. ChIPs were performed on 48 hour biofilm cells grown in Spider medium. Two biological replicates were performed, and normalized data is reported in matrix.

Organism:

Candida albicans

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL13696

4 Samples

Download data: GPR

(Submitter supplied) The purpose of this experiment was to identify the genes bound by the regulator Ndt80 in C. albicans, C. dubliniensis and C. tropicalis during biofilm formation in different growth media. Ndt80 was tagged with a c-myc epitope in the three species and the immunoprecipitation of the tagged strain was compared to that of an untagged control strain in two different media for each species.

Organism:

Candida tropicalis; Candida albicans; Candida dubliniensis

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL29382 GPL29383 GPL19036

24 Samples

Download data: TXT

(Submitter supplied) The purpose of this experiment was to identify the genes bound by the regulator Ndt80 in a C. albicans x C. dubliniensis hybrid during biofilm formation. C. albicans or C. dubliniensis Ndt80 was tagged with a c-myc epitope in a C. albicans x C. dubliniensis hybrid and the immunoprecipitation of the tagged strain was compared to that of an untagged control hybrid strain.

Organism:

Candida albicans x Candida dubliniensis

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL29384

6 Samples

Download data: TXT

(Submitter supplied) The purpose of this experiment was to identify the genes bound by the biofilm master regulators (Bcr1, Brg1, Efg1, Ndt80, Rob1 and Tec2) in Candida albicans, C. dubliniensis, C. tropicalis and C. parapsilosis during biofilm formation. The regulators were tagged with a c-myc epitope and the immunoprecipitation of the tagged strain was compared to that of an untagged control strain.

Organism:

Candida albicans; Candida parapsilosis; Candida dubliniensis; Candida tropicalis

Type:

Genome binding/occupancy profiling by high throughput sequencing

6 related Platforms

61 Samples

Download data: TXT

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

Organism:

Candida albicans; Candida parapsilosis; Candida tropicalis; Candida dubliniensis; Candida albicans x Candida dubliniensis

Type:

Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing

11 related Platforms

127 Samples

Download data: GPR, TXT

(Submitter supplied) The goal was to identify genes that change their expression in biofilm vs. planktonic growth. Cultures for the extraction of total RNA under biofilm growth conditions were performed on biofilms grown on the bottom of 6-well polystyrene plates for 48 hours at 37°C and 200 rpm as previously described (Nobile et al. 2012). The media used was Spider 1% glucose, Spider and RPMI 1% glucose. Planktonic cultures for total RNA were grown in the same media by inoculating with cells from an overnight 30°C YPD culture to an OD600 of 0.05. more...

Organism:

Candida albicans

Type:

Expression profiling by array

Platform:

GPL16243

12 Samples

Download data: GPR

(Submitter supplied) The goal was to identify genes that change their expression in biofilm vs. planktonic growth. Cultures for the extraction of total RNA under biofilm growth conditions were performed on biofilms grown on the bottom of 6-well polystyrene plates for 48 hours at 37°C and 200 rpm as previously described (Nobile et al. 2012). The media used was Spider 1% glucose and Spider. Planktonic cultures for total RNA were grown in the same media by inoculating with cells from an overnight 30°C YPD culture to an OD600 of 0.05. more...

Organism:

Candida albicans

Type:

Expression profiling by array

Platform:

GPL13813

8 Samples

Download data: GPR

(Submitter supplied) The goal was to identify genes that change their expression in biofilm vs. planktonic growth. Cultures for the extraction of total RNA under biofilm growth conditions were performed on biofilms grown on the bottom of 6-well polystyrene plates for 48 hours at 37°C and 200 rpm as previously described (Nobile et al. 2012). The media used was Spider 1% glucose and RPMI 1% glucose. Planktonic cultures for total RNA were grown in the same media by inoculating with cells from an overnight 30°C YPD culture to an OD600 of 0.05. more...

Organism:

Candida tropicalis

Type:

Expression profiling by array

Platform:

GPL29364

8 Samples

Download data: GPR

(Submitter supplied) The goal was to identify genes that change their expression in biofilm vs. planktonic growth. Cultures for the extraction of total RNA under biofilm growth conditions were performed on biofilms grown on the bottom of 6-well polystyrene plates for 48 hours at 37°C and 200 rpm as previously described (Nobile et al. 2012). The media used was Spider 1% glucose and Spider. Planktonic cultures for total RNA were grown in the same media by inoculating with cells from an overnight 30°C YPD culture to an OD600 of 0.05. more...

Organism:

Candida dubliniensis

Type:

Expression profiling by array

Platform:

GPL29363

8 Samples

Download data: GPR

(Submitter supplied) Recent cumulative data shows that various transcription factors are recruited to the chromatin in an iron-responsive manner to affect diverse cellular functions in the pathogenic fungus Candida albicans. Here, we identified groups of iron-responsive genes in C. albicans by chromatin remodeling analysis at gene promoters, using micrococcal nuclease (MNase) digestion followed by deep sequencing. Chromatin in the promoter regions of iron uptake and utilization genes showed repressed and active configuration, respectively, under iron-replete conditions. more...

Organism:

Candida albicans

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL15645

4 Samples

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