GEO DataSets

(Submitter supplied) Cryptococcus neoformans is a ubiquitous free-living soil yeast and opportunistic pathogen that causes ~223,100 cases of cryptococcal meningitis per year, killing over 180,000 people. The pathogenicity of C. neoformans relies on its adaptation to the host conditions. An important difference between its natural environment and the mammalian host is the concentration of CO2. CO2 levels in the host fluctuate around 5%, which is ~125-fold higher than in ambient air. more...

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21073

18 Samples

Download data: XLSX

(Submitter supplied) Cryptococcus neoformans (Cn) is an opportunistic fungal microorganism that causes life-threatening meningoencephalitis. Calorie restriction is an intervention that extends the lifespan of Cn. The mating types of Cn have striking differences in prevalence in both environmental and clinical settings. This is hypothesized to be due to differences in stress responses between mating types. Using RNAseq, we investigated how the two mating types respond to the stress of starvation during calorie restriction.

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28713

8 Samples

Download data: TXT

(Submitter supplied) Cryptococcus neoformans (Cn) is an opportunistic fungal microorganism that causes life-threatening meningoencephalitis. During the infection, the microbial population is heterogeneously composed of cells with varying generational ages, with older cells accumulating during chronic infections. This is attributed to their enhanced resistance to phagocytic killing and tolerance of antifungals like fluconazole (FLC). more...

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28713

4 Samples

Download data: TXT

(Submitter supplied) Fungal infections have become a clinical challenge due to the emergence of drug-resistance of invasive fungi and a rapid increase of novel pathogens. The development of drug resistance has further restricted the use of antifungal agents. Therefore, there is anurgentneedto searchforalternativetreatmentoptions for Cryptococcus neoformans (C. neoformans). Disulfiram (DSF) has a high human safety profile and promising applications as an antiviral, antifungal, antiparasitic, and anticancer agent. more...

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28713

6 Samples

Download data: TXT

(Submitter supplied) Casein kinase 2 (CK2) is a potential therapeutic target for several human diseases due to its crucial roles in growth, differentiation, and metabolic homeostasis. This study delves into the role of the CK2 complex in Cryptococcus neoformans, a key fungal pathogen causing meningitis. In C. neoformans, the CK2 complex is made up of a main catalytic subunit (Cka1) and two regulatory subunits (Ckb1 and Ckb2). more...

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21073

9 Samples

Download data: CSV

(Submitter supplied) Cryptococcus spp. are environmental fungi that first must adapt to the host environment before they can cause life-threatening meningitis in immunocompromised patients. Host CO2 concentrations are 100-fold higher than the external environment and strains unable to grow at host CO2 concentrations are not pathogenic. Using a genetic screening and transcriptional profiling approach, we found that the TOR pathway is critical for C. more...

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21073

24 Samples

Download data: XLSX

(Submitter supplied) Isolates of Cryptococcus neoformans, a fungal pathogen that kills almost 200,000 people worldwide each year, differ at a few thousand up to almost a million DNA sequence positions compared to a 19-megabase reference genome. We used bulked segregant analysis and association analysis, genetic methods that require no prior knowledge of sequence function, to address the key question of which naturally occurring variants influence fungal virulence. more...

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27451

16 Samples

Download data: CSV

(Submitter supplied) Thermotolerance, a key factor essential for the virulence of pathogenic fungi including Cryptococcus neoformans, remains largely unexplored in terms of its underlying mechanism. In this study, our findings demonstrate that Set3C, a widely distributed and conserved histone deacetylase complex, is required for thermotolerance in Cryptococcus neoformans. Specifically, the deletion of the core subunit Set302, responsible for the integrity of the complex, results in a significant reduction in the growth ability under high stress and the viability at extreme temperature. more...

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19081

12 Samples

Download data: TXT

(Submitter supplied) The “Amoeboid Predator-Fungal Animal Virulence Hypothesis” posits that interactions with environmental phagocytes shape the evolution of virulence traits in fungal pathogens. In this hypothesis, selection to avoid predation by amoeba inadvertently selects for traits that contribute to fungal escape from phagocytic immune cells. Here, we investigate this hypothesis in the human fungalpathogens Cryptococcus neoformans and Cryptococcus deneoformans. more...

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27451

32 Samples

Download data: TSV

(Submitter supplied) Cryptococcus neoformans is a life-threatening basidiomycete fungal pathogen responsible for meningoencephalitis in immunocompromised patients. This yeast can adapt to diverse habitats, efficiently produces virulence factors, and escapes immune surveillance. This implies intricate mechanisms underlying its gene regulation networks, which are yet to be comprehensively understood. Alternative transcription usage regulation has been identified as the major mean formeans of gene expression regulation in metazoans. more...

Organism:

Cryptococcus neoformans

Type:

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

Platforms:

GPL28713 GPL33584

42 Samples

Download data: BED, TXT, WIG

(Submitter supplied) Cryptococcus neoformans poses a great threat to human communities, given that it quickly becomes resistant to available antifungal drugs. Herein, a conserved chromatin remodeler, Isw1, is shown to function as a master transcriptional modulator of genes responsible for multidrug resistance. It reciprocally controls drug resistance, and cells with disrupted ISW1 demonstrate profound resistance to fluconazole, ketoconazole, 5-fluorocytosine and 5-fluorouracil. more...

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28713

6 Samples

Download data: TXT

(Submitter supplied) The microbiome has revealed itself as a key player in health and disease. To better understand its role, in addition to microbial diversity, it is important to understand species-specific activity and gene expression. While metatranscriptomics investigates mRNA abundance2, it does not inform about faster post-transcriptional regulation3. Although prokaryotic translation is a common target for antibiotics, a direct measurement of microbiome ribosome dynamics remains inaccessible. more...

Organism:

Segatella copri; Alistipes finegoldii; Hoylesella timonensis; compost metagenome; Listeria monocytogenes; Saccharomyces cerevisiae; Salmonella enterica; Parabacteroides merdae; Enterococcus faecalis; Bacillus subtilis; Limosilactobacillus reuteri; Limosilactobacillus fermentum; human feces metagenome; Escherichia coli; Synechocystis sp. PCC 6803; Staphylococcus aureus; Bacillus amyloliquefaciens; Lactiplantibacillus plantarum; Cryptococcus neoformans; Caulobacter vibrioides

Type:

Other

17 related Platforms

199 Samples

Download data: BEDGRAPH, TXT, XLSX

(Submitter supplied) This study aimed to investigate transcriptomic changes in Cryptococcus neoformans mutants. We report transcriptome wide changes in the puf4∆ under basal growth conditions (30˚C, midlog, YPD). We report transcriptome remodeling following hydrogen peroxide (H2O2) treatment in wildtype (H99) and gcn4∆ cells.

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL14571

10 Samples

Download data: XLS

(Submitter supplied) Purpose: Investigate the dynamics of cryptococcal cell and transcriptional remodeling during pulmonary infection in a murine model Methods: Dual-RNA sequencing Sample preparation - C57BL/6 mice were infected intratracheally with the H99 strain to analyze the transcriptome. After 6h or 240h of infection, BALF obtained from 6 mice of each condition were pooled together, generating two replicates of 6h and 240h (10d). more...

Organism:

Mus musculus; Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL14571 GPL13112

6 Samples

Download data: CSV, TXT

(Submitter supplied) Purpose: To identify the downstream gene sets regulated by Mpk1p in C. neoformans normal and Tunicamycin-treated conditions, we compared the RNA-seq based transcriptional profiles. Methods: Total RNA was isolated according to the RNeasy Mini Kit (Qiagen) and all procedure for RNA sequencing were conducted by ebiogen. The mRNA was isolated by using the Poly(A) RNA Selection Kit (LEXOGEN) and isolated mRNAs were used for the cDNA synthesis. more...

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28713

8 Samples

Download data: XLSX

(Submitter supplied) The kinase, putative endopeptidase and other peptides of small size (KEOPS) complex plays critical cellular functions in eukaryotes, but its pathobiological roles remains elusive in fungal pathogens. Here we comprehensively analyze the pathobiological functions of the KEOPS complex in fungal meningoencephalitis pathogen Cryptococcus neoformans. The cryptococcal KEOPS complex appears to have a linear arrangement of Pcc1-Kae1-Bud32-Cgi121, supported by physical interaction between Pcc1-Kae1, Kae1-Bud32, and Bud32-Cgi121, but does not have Gon7 ortholog, which is the part of the S. more...

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21073

12 Samples

Download data: XLSX

(Submitter supplied) Cryptococcus neoformans is an opportunistic basidiomycete pathogen that is a major etiological agent of fungal meningoencephalitis leading to more than 180,000 deaths worldwide annually. For this pathogen, the polysaccharide capsule is a key virulence factor, which interferes with the phagocytosis by host innate immune cells, but its complex signaling networks remain elusive. In this study, we systematically analyzed capsule biosynthesis and signaling networks by using C. more...

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32481

30 Samples

Download data: XLSX

(Submitter supplied) Wild type strain H99 compared to independent sir2 deletion mutants grown to mid-log (0.6 OD600) in rich medium (YPD) shaking at 250rpm in baffled flasks.

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19081

6 Samples

Download data: GTF, TXT

(Submitter supplied) We compared the transcriptome of subpopulations of Cryptococcus neoformans cells within the lungs and C. neoformans cells cultured in capsule repressing medium, capsule inducing medium, and capsule inducing medium with the addition of 10% conditioned medium from cells grown in capsule repressing medium. The aim of the study was to identify genes that regulate C. neoformans cell body and capsule size reductions.

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28713

18 Samples

Download data: XLSX

(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