GEO DataSets

(Submitter supplied) Cryptococcus neoformans is an important pathogen that annually kills 200,000 people worldwide. It survives in the environment as a yeast or spore and can also proliferate within host macrophages after being inhaled into the lungs. In conditions of immunocompromise, cryptococcal cells can escape from the lungs to the brain, where they cause a deadly meningoencephalitis that is both difficult and expensive to treat. more...

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19081

21 Samples

Download data: TSV

(Submitter supplied) We report on our study the role of C. neoformans transcription factor Pdr802, whose expression is highly induced under host-like conditions in vitro and is critical for C. neoformans dissemination and virulence in a mouse model of infection. We found that direct targets of Pdr802 include the calcineurin targets Had1 and Pmc1, which are important for C. neoformans virulence, the transcription factor Bzp4, which promotes cryptococcal melanization and capsule thickness, and 35 transmembrane transporters. more...

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27451

56 Samples

Download data: CSV

(Submitter supplied) We report on our study the role of C. neoformans transcription factor Pdr802, whose expression is highly induced under host-like conditions in vitro and is critical for C. neoformans dissemination and virulence in a mouse model of infection. We found that direct targets of Pdr802 include the calcineurin targets Had1 and Pmc1, which are important for C. neoformans virulence, the transcription factor Bzp4, which promotes cryptococcal melanization and capsule thickness, and 35 transmembrane transporters. more...

Organism:

Cryptococcus neoformans

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL27451

12 Samples

Download data: BED, NARROWPEAK

(Submitter supplied) AP-1 like transcription factors play evolutionarily conserved roles in oxidative stress responses as redox sensors in eukaryotes. In this study, we aim to elucidate the regulatory mechanism of an atypical yeast AP-1 like protein, Yap1, in the stress response and virulence of Cryptococcus neoformans. YAP1 expression was induced not only by oxidative stresses, such as H2O2 and diamide, but also by other environmental stresses, such as osmotic and membrane destabilizing stresses. more...

Organism:

Cryptococcus neoformans var. grubii H99

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23176

6 Samples

Download data: XLSX

(Submitter supplied) In eukaryotes, inositol polyphosphates perform essential metabolic and signaling functions. Using human fungal pathogen Cryptococcus neoformans as a model, we created mutants in three inositol polyphosphates kinases: Arg1, Ipk1 and Kcs1. Each of the mutants produces a unique repertoire of inositol polyphosphates, different from the wild type strain. Comparative phenotypic and transcriptome analyses of wild type and mutant strains indicates that inositol polyphosphate PP-IP5 (IP7) is the key regulator of gene expression, fitness and virulence in C. more...

Organism:

Cryptococcus neoformans var. grubii H99

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21548

12 Samples

Download data: TAB

(Submitter supplied) Virulence of Cryptococcus neoformans for mammals was proposed to emerge from evolutionary pressures on its natural environment by protozoan predators, which selected for strategies that allow survival within macrophages. In fact, Acanthamoeba castellanii ingests yeast cells, which then replicate intracellularly. In addition, most fungal factors needed to establish infection in the mammalian host are also important for survival within the amoeba. more...

Organism:

Cryptococcus neoformans

Type:

Expression profiling by array

Platform:

GPL15151

12 Samples

Download data: GPR

(Submitter supplied) To investigate the pleiotropic roles of Lkh1 in stress response and virulence, we constructed lkh1∆ mutant strains. In this study, we found that Tor1 was an upstream regulator of Lkh1 in C. neoformans. We then performed gene expression profiling analysis to elucidate signaling circuitry downstream of CnLkh1 in the TOR1-Lkh1 pathway using data obtained from RNA seq of 2 different strains (WT of lkh1∆ mutant) with or without rapamycin treatment.

Organism:

Cryptococcus neoformans var. grubii H99

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33437

12 Samples

Download data: TXT

(Submitter supplied) A family of APSES transcription factor is known to be fungal-specific transcriptional regulators and play important roles in governing growth, differentiation, and virulence of diverse fungal pathogens. Yet none of APSES-like transcription factors have been identified and investigated in a basidiomycetous fungal pathogen, Cryptococcus neoformans. In the present study we discovered an APSES-like transcription factor, Msa1 (Mbp1/Swi4-like APSES protein 1), as one of novel flucytosine-responsive genes (total 194 genes) identified through comparative transcriptome analysis of C. more...

Organism:

Cryptococcus neoformans var. neoformans JEC21; Cryptococcus neoformans var. grubii H99

Type:

Expression profiling by array

Platform:

GPL8638

24 Samples

Download data: GPR

(Submitter supplied) Purpose: To identify the downstream genes whose expression levels are affected by the deletion of gsb1 under non-stress and oxidative stress conditions, we compared the RNA-seq based transcriptional profiles of wild-type and gsb1 cells. Methods: mRNA profiles of cells grown at non-stress and oxidative stress conditions were generated by RNA-seq using Illumina GAIIx. The sequence reads that passed quality filters were mapped to reference genome and the normalized RPKM values were calculated by CLC Genomics Workbench. more...

Organism:

Cryptococcus neoformans var. grubii H99

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL23176 GPL15546

4 Samples

Download data: TXT

(Submitter supplied) Purpose: To examine the comparative transcriptional profiles of WT and rim101 mutant cells in host-mimicking in vitro conditions to determine genes that are responsible for the increased virulence of the rim101 strain. The rim101 mutant is able to trigger an overactive inflammatory response, presumably by exposing an antigenic trigger. Using transcriptional profiling, we determined that many genes involved in cell wall processes were differentially transcribed between the wild type and the mutant strain.

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16431

2 Samples

Download data: CSV

(Submitter supplied) Cryptococcus neoformans is a fungal pathogen responsible for hundreds of thousands of deaths per year. Its critical virulence factor is a polysacharride capsule which grows large upon entry into a mammalian host. We previously identified USV101 as a transcription factor whose deletion results in enlarged capsules. Here, we characterize strains lacking or overexpressing USV101 in terms of their virulence-related phenotypes, the altered course of infection by them and immune response to them in a mouse model, the relationship of Usv101 to other transcription factors involved in capsule regulation, and the changes in Usv101 activity during capsule induction.

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19081

46 Samples

Download data: CUFF, TXT

(Submitter supplied) Purpose: Key steps in understanding a biological process include identifying genes that are involved and determining how they are regulated. We developed a novel method for identifying TFs involved in a specific process and used it to map regulation of the key virulence factor of Cryptococcus neoformans, its capsule. Results: The map, built from expression profiles of 41 TF mutants, includes 20 TFs not previously known to regulate virulence attributes. more...

Organism:

Cryptococcus neoformans

Type:

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

Platforms:

GPL19081 GPL14571

320 Samples

Download data: BED, CUFF, TXT

(Submitter supplied) Fcp1 is a protein phosphatase that facilitates transcription elongation and termination by dephosphorylating the C-terminal domain of RNA Polymerase II. Here, we report an unanticipated role in the repression of the oxidative stress induced genes. High-throughput genetic and gene expression profiling of FCP1 mutants uncovered a link to Skn7, a key transcription factor in the oxidative stress response pathways, as well as a link to the Mediator complex kinase subunit, Cdk8. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL11232

16 Samples

Download data: TXT

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

Organism:

Cryptococcus neoformans var. neoformans; Cryptococcus neoformans

Type:

Expression profiling by array

Platforms:

GPL4009 GPL15151

20 Samples

Download data: CSV, GPR

(Submitter supplied) Changes in gene expression of the serotype A wild-type strain H99W with the hva1∆ (8), hva1∆+HVA1 (8-15) or a Galleria-passaged (P15) strain were examined during log-phase growth at 37 ºC.

Organism:

Cryptococcus neoformans

Type:

Expression profiling by array

Platform:

GPL15151

12 Samples

Download data: CSV, GPR, TXT

(Submitter supplied) Changes in gene expression of the serotype A pre-passage wild-type strain H99W with two mouse-passaged strains were examined during log-phase growth at 37 ºC.

Organism:

Cryptococcus neoformans var. neoformans; Cryptococcus neoformans

Type:

Expression profiling by array

Platform:

GPL4009

8 Samples

Download data: CSV, TXT

(Submitter supplied) The transcriptional responses of cryptococcus during human infection are dynamic and highly dependent on the immediate signals from the environment. We examined the RNA-Seq profiles of Cryptococcus isoalted from human CSF and in comparison with to the same isolate's response to the stresses of artificial CSF and within the rabbit subarachnoid space as well as growth in nutritious media with little or no stress. more...

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL19081 GPL27451

125 Samples

Download data: TXT

(Submitter supplied) Cryptococcus neoformans is an opportunistic environmental fungal pathogen that at its peak epidemic levels caused an estimated million cases of cryptococcal meningitis per year worldwide. This yeast can adapt to various external (trees, soil, and/or bird excreta) and internal environments (intracellular microenvironments of phagocytes and/or free-living in host tissues/fluids). The genetic basic for this adaptation is not fully characterized and primarily relies on a single reference C. more...

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL14571

118 Samples

Download data: TXT

(Submitter supplied) The basidiomycetous fungus Cryptococcus has been known as radiation resistant fungi and is found in highly radioactive environments such as the damaged nuclear reactor at Chernobyl. Although Cryptococcus exhibits greater resistant for gamma radiation than the model yeast Saccharomyces cerevisiae, the resistant mechanism of gamma radiation remains elusive. To elucidate a unique regulatory system for radiation-resistance in C. more...

Organism:

Cryptococcus neoformans; Cryptococcus neoformans var. grubii H99

Type:

Expression profiling by array

Platform:

GPL18333

12 Samples

Download data: GPR

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

Organism:

Cryptococcus neoformans var. grubii H99; Cryptococcus neoformans var. neoformans; Cryptococcus neoformans

Type:

Expression profiling by array

Platforms:

GPL10872 GPL4009

26 Samples

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