GEO DataSets

(Submitter supplied) Candida albicans is an opportunistic fungal pathogen that can infect oral mucosal surfaces despite being under continuous flow from saliva. Previous studies have shown that under specific conditions C. albicans will form microcolonies that more closely resemble the biofilms formed in vivo than standard in vitro biofilm models. However, very little is known about these microcolonies, particularly genomic differences between these specialized biofilm structures and the traditional in vitro biofilms. more...

Organism:

Candida albicans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19036

6 Samples

Download data: DIFF

(Submitter supplied) Sfl1p and Sfl2p are two homologous heat shock factor-type transcriptional regulators that antagonistically control morphogenesis in Candida albicans, while being required for full pathogenesis and virulence. To understand how Sfl1p and Sfl2p exert their function, we combined genome-wide location and expression analyses to reveal their transcriptional targets in vivo together with the associated changes of the C. more...

Organism:

Candida albicans

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL15645

8 Samples

Download data: WIG

(Submitter supplied) Candida albicans and Candida dubliniensis are closely related species displaying differences in virulence and genome content, therefore providing potential opportunities to identify novel C. albicans virulence genes. C. albicans gene arrays were used for comparative analysis of global gene expression in the two species in reconstituted human oral epithelium (RHE). C. albicans (SC5314) showed upregulation of hypha-specific and virulence genes within 30 min postinoculation, coinciding with rapid induction of filamentation and increased RHE damage. more...

Organism:

Candida albicans; Candida dubliniensis

Type:

Expression profiling by array

Platform:

GPL6453

8 Samples

Download data: GPR, TXT

(Submitter supplied) Candida albicans and Candida dubliniensis are closely related species displaying differences in virulence and genome content, therefore providing potential opportunities to identify novel C. albicans virulence genes. C. albicans gene arrays were used for comparative analysis of global gene expression in the two species in reconstituted human oral epithelium (RHE). C. albicans (SC5314) showed upregulation of hypha-specific and virulence genes within 30 min postinoculation, coinciding with rapid induction of filamentation and increased RHE damage. more...

Organism:

Candida dubliniensis; Candida albicans

Type:

Expression profiling by array

Platform:

GPL6475

6 Samples

Download data: GPR, 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) Candida albicans is the most common opportunistic fungal pathogen of humans and is also a benign member of the gastrointestinal (GI) tract microbiota. Morphological transitions and metabolic regulation are critical for C. albicans to adapt to the changing host environment. We generated a library of central metabolic pathway mutants in the tricarboxylic acid (TCA) cycle, and investigated the functional consequences of these gene deletions on C. more...

Organism:

Candida albicans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15645

8 Samples

Download data: XLS

(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) The opportunistic pathogenic fungus Candida albicans can cause devastating infections in severely compromised patients. Its ability to undergo a morphogenetic transition from yeast to filamentous forms allows it to penetrate tissues and cause damage, and the expression of a number of pathogenetic mechanisms are also coordinately regulated with this yeast-to-hyphae conversion. Therefore, it is widely considered that filamentation represents one of the main virulence factors of C. more...

Organism:

Candida albicans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15645

6 Samples

Download data: CSV, TXT

(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 Poly(A)-Tail focused RNA-seq, or PAT-seq approach, is an affordable and efficient tool for the measure of 3’UTR dynamics. We show here that PAT-seq returns (i) digital gene expression, (ii) polyadenylation site usage within and between samples, including alternative adenylation, and (iii) the polyadenylation-state the transcriptome. PAT-seq differs from previous 3’ focused RNA-seq methods in that it strictly depends on native 3’ adenylation within total RNA samples and thus removes the need for ribosome depletion and, that the full native poly(A)-tail is included in the sequencing libraries. more...

Organism:

Saccharomyces cerevisiae

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL18085

13 Samples

Download data: CSV

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

Organism:

Candida parapsilosis

Type:

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

Platform:

GPL16091

14 Samples

Download data

(Submitter supplied) In Candida albicans the Efg1 transcription factor (a member of the APSES family) is an important regulator of hyphal growth, and of the white-to-opaque transition. In contrast, we show that the Efg1 ortholog in Candida parapsilosis is a major regulator of a different morphological switch at the colony level, from a concentric to smooth morphology. The rate of switching is at least 100-fold increased in an efg1 knockout relative to wild type. more...

Organism:

Candida parapsilosis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16091

8 Samples

Download data: TXT

(Submitter supplied) We use ChIP-seq to identify the targets of Efg1 in Candida parapsilosis. We show that Efg1 binds to 502 promoter regions, including 70 potential transcription factors or regulatory proteins. Several of the transcription factors belong to networks that regulate biofilm development and white-opaque switching in C. albicans. Efg1 also binds to its own promoter. The binding site for C. parapsilosis Efg1 resembles that of orthologs in other fungi. more...

Organism:

Candida parapsilosis

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL16091

6 Samples

Download data: FASTA, TXT

(Submitter supplied) tRNA modifications play important roles in maintaining translation accuracy in all domains of life. Disruptions in the tRNA modification machinery, especially of the anticodon stem loop, can be lethal for many bacteria and lead to a broad range of phenotypes in baker’s yeast. Very little is known about the function of tRNA modifications in host-pathogen interactions, where rapidly changing environments and stresses require fast adaptations. more...

Organism:

Candida albicans

Type:

Other

Platform:

GPL22403

12 Samples

Download data: TXT

(Submitter supplied) Candida albicans is a diploid human fungal pathogen that displays significant genomic and phenotypic heterogeneity over a range of virulence traits and in the context of a variety of environmental niches. Here, we show that the effects of Rob1 on biofilm and filamentation virulence traits is dependent on both the specific environmental condition and the clinical strain of C. albicans. The C. albicans reference strain SC5314 is a ROB1 heterozygote with two alleles that differ by a single nucleotide polymorphism at position 946 resulting in a serine or proline containing isoform. more...

Organism:

Candida albicans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL9133

12 Samples

Download data: TXT

(Submitter supplied) C. albicans is a dimorphic yeast which can switch from budding yeast and to hyphal forms and this property is essential for biofilm establishment and maturation. C. albicans undergoes this yeast-to-hyphal switch in response to high CO2. The purpose of this study is to use RNA-seq to investigate pathways whose genes are differentially expressed when C. albicans biofilms are grown in a physiologically relevant elevated (5%) CO2 environment compared to a low/atmospheric (0.03%) CO2 environment. more...

Organism:

Candida albicans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22403

6 Samples

Download data: TXT, XLSX

(Submitter supplied) The opportunistic human fungal pathogen, Candida albicans, undergoes morphological and transcriptional adaptation in the switch from commensalism to pathogenicity. Although previous gene-knockout studies have identified many factors involved in this transformation, it remains unclear how these factors are regulated to coordinate the switch. Investigating morphogenetic control by post-translational phosphorylation has generated important regulatory insights into this process, especially focusing on coordinated control by the cyclin-dependent kinase Cdc28. more...

Organism:

Candida albicans

Type:

Expression profiling by array

Platform:

GPL19574

10 Samples

Download data: TXT

(Submitter supplied) Mms21 deletion in Candida albicans resulted in invasveness and filamentatation in YPD media at 30 degrees Celsius. Wild type SN148 do not make any Filaments in YPD at 30 degrees Celsius. The aim was to look for transcription profiling mms21 dleleted mutant against wild type to find genes up and down regulated in the mutant especially thoseones critical for filamentation

Organism:

Candida albicans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23041

4 Samples

Download data: TSV

(Submitter supplied) Mms21 deleteion in Candida albicans resulted in invasveness and filamentatation in YPD media at 30 degrees Celsius. Wild type SN148 do not make any Filaments in YPD at 30 degrees Celsius. The aim was to look for transcription profiling mms21 dleleted mutant against wild type to find genes up and down regulated in the mutant especially thoseones critical for filamentation. Mms21 deleteion in Candida albicans resulted in invasveness and filamentatation in YPD media at 30 degrees Celsius. more...

Organism:

Candida albicans

Type:

Expression profiling by array

Platform:

GPL19196

2 Samples

Download data: TXT

(Submitter supplied) Cis-2-dodecenoic acid (BDSF), a signalling molecule produced from burkholderia cenocepanic, can prevent C. albicans hyphal and biofilm formation. The mechanism of how BDSF controls C. albicans morphological switch is still unknown. To address this issue, we used DNA microarray method to investigate the changes in gene expression before and after BDSF treatment. Further, screening a mutant library based on microarray data was carried out to find the mutants unresponding to BDSF.

Organism:

Candida albicans SC5314

Type:

Expression profiling by array

Platform:

GPL27468

2 Samples

Download data: LSR, XLSX