Ontology highlight
ABSTRACT:
PROVIDER: PRJNA908647 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR22525900_1.fastq.gz | Fastqsanger.gz | |||
| SRR22525900_2.fastq.gz | Fastqsanger.gz | |||
| SRR22525901_1.fastq.gz | Fastqsanger.gz | |||
| SRR22525901_2.fastq.gz | Fastqsanger.gz | |||
| SRR22525902_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 46 |
Similar Datasets
Project description:The purpose of this experiment was to detect Aspergillus fumigatus genes that are up- and downregulated in the presence of low concentrations, and also in supra-MIC concentrations of voriconazole, which is persister growth.
2023-02-23 | E-MTAB-11547 | biostudies-arrayexpress
Project description:The Negative cofactor 2 (NCT) complex is an evolutionally conserved heterodimeric transcription factor. In Aspergillus fumigatus, the NCT complex consists of two subunits NctA and NctB. Through a genome-wide screening of a transcription factor null mutant strains, we found that loss of the NCT complex leads to a multi-drug resistance phenotype including the azoles (itraconazole, voriconazole and posaconazole) as well as the salvage therapeutic amphotericin B, and terbinafine. To obtain further insight into the molecular mechanisms driving the azole-resistance in the NCT complex null mutants, we analyzed genome-wide binding profiles of NctA using chromatin-immunoprecipitation sequencing (ChIP-seq). Our ChIP-seq analysis revealed that NCT complex binds the promoters of several ergosterol biosynthetic genes, their transcriptional regulators, and the azole efflux pump cdr1B. Taken together, these results suggest that the NCT complex plays a role as a master regulator of drug resistance in A. fumigatus.
2019-12-31 | GSE129967 | GEO
Project description:Aspergillus fumigatus exposed to voriconazole
| PRJNA631905 | ENA
Project description:Two mutant strains of Aspergillus fumigatus derived from strain A1160, HapB and 29.9, display resistance to the antifungal drug itraconazole. To understand what underlying transcriptional processes contribute to this resistance, A1160, HapB and 29.9 were cultured either in the presence or absence of itraconazole. RNA-sequencing was used to compare transcription profiles of each mutant strain with or without the drug, to A1160 with or without drug.
2016-04-30 | E-SYBR-5 | biostudies-arrayexpress
Project description:Here, we report significant changes in the composition of the lung microbiome and metabolome of mice under immune suppression, infection of immunosuppressed mice with virulent and avirulent strains of the clinically important human-pathogenic fungus Aspergillus fumigatus, and treatment with the clinically used antifungal drug voriconazole. Our data also indicate the important role of the gut microbiome for the lung homeostasis mediated by the plasma metabolome. In the lung microbiome, infection by A. fumigatus led to a significant increase of anaerobic bacteria, most prominently of Ligilactobacillus murinus. We also isolated live bacteria including L. murinus from the murine lower respiratory tract. In vitro, L. murinus is tolerated and even internalized by alveolar epithelial cells. Co-cultivation of L. murinus and A. fumigatus led to a reduction in oxygen concentration accompanied by an increase of L. murinus cells suggesting that A. fumigatus establishes a microaerophilic niche, thereby promoting growth of anaerobic bacteria.
2025-07-04 | MTBLS12262 | MetaboLights
Project description:The Negative cofactor 2 (NCT) complex is an evolutionally conserved heterodimeric transcription factor. In Aspergillus fumigatus, the NCT complex consists of two subunits NctA and NctB. Through a genome-wide screening of a transcription factor null mutant strains, we found that loss of the NCT complex leads to a multi-drug resistance phenotype including the azoles (itraconazole, voriconazole and posaconazole) as well as the salvage therapeutic amphotericin B, and terbinafine. To obtain further insight into the molecular mechanisms driving the azole-resistance in the NCT complex null mutants, we analyzed genome-wide gene expression profiles of the nctA and the nctB null mutants using RNA-seq. Our expression profiling revealed that disruption of the genes lead to upregulation of several ergosterol biosynthetic genes, their transcriptional activators, and the azole efflux pump cdr1B. Taken together, these results suggest that the NCT complex plays a role as a master regulator of drug resistance in A. fumigatus.
2019-12-31 | GSE133464 | GEO
Project description:Persistence and tolerance allow susceptible microbial populations to survive antimicrobial exposure without changes in minimum inhibitory concentration, but these phenomena remain poorly characterized in fungi. We investigated the mechanisms underlying voriconazole (VOR) persistence in Aspergillus fumigatus. Transcriptional profiling of wild-type conidia surviving prolonged 4×MIC VOR exposure showed that persistence is not passive dormancy but an active program combining cellular reinforcement (protein and cell wall synthesis), metabolic adaptation (alternative energy sources, lipid remodeling), and stress mitigation (secondary metabolism, membrane transport), alongside broad repression of transcription, RNA processing, and DNA repair. Chemical inhibition of protein translation (puromycin), sphingolipid biosynthesis (myriocin), or cell wall remodeling (Calcofluor White/Congo Red) each reduced the persistence index, with sphingolipid inhibition producing the strongest effect. Screening 484 transcription factor deletion mutants identified two regulators, MtfA and AFUB_040000, whose loss increased VOR persistence and altered both germination kinetics and the basal transcriptional state of conidia. Titratable repression or overexpression of the essential regulators TorA and PkcA similarly enhanced persistence in both directions, indicating that maintenance within a defined physiological range, rather than pathway activity per se, governs the persistent phenotype. Extending this analysis to the core MAPK network, MpkA, MpkB, and MpkC, but not SakA, contributed to VOR persistence, with MpkC required for VOR-induced upregulation of MtfA and AFUB_040000. Together, these pharmacological and genetic data converge on a model in which protein translation, sphingolipid biosynthesis, and cell wall integrity/MAPK signaling coordinately determine A. fumigatus persistence under azole stress, nominating these pathways as candidate targets for combination antifungal strategies.
2026-09-02 | GSE345617 | GEO
Project description:Amphotericin B (AMB) is the most widely used polyene antifungal drug for the treatment of systemic fungal infections including invasive aspergillosis. We aimed to understand molecular targets of AMB in Aspergillus fumigatus (Afu) by genomic approaches. Keywords: Aspergillus fumigatus treated with amphotericin B for 24 hours
2008-02-14 | GSE10505 | GEO
Project description:The RNA interference (RNAi) pathway has evolved numerous functionalities in eukaryotes, with many on display in Kingdom Fungi. RNAi can regulate gene expression, facilitate drug resistance, or even be altogether lost to improve virulence potential in some fungal pathogens. In the WHO fungal priority pathogen, Aspergillus fumigatus, the RNAi system is known to be intact and functional. To extend our limited understanding of A. fumigatus RNAi, we performed a multi-condition sRNA-seq analysis comparing expression of several RNAi double knockout mutants with the wild-type strain in conidia and mycelium grown for 24 or 48 hours.
2024-05-25 | GSE267454 | GEO
Project description:Aspergillus fumigatus can cause Invasive Pulmonary Aspergillosis (IPA), the most severe form of Aspergillus-related infections. Fungicidal azoles and fungistatic caspofungin (CAS) are the first- and second-line therapies, respectively, used to treat IPA. However, azole-resistance is on the rise and new therapeutic alternatives need to be implemented. Recently, we showed that treatment of A. fumigatus with CAS or micafungin, but not voriconazole, induces production of the oxylipin 5,8-diHODE by the fungal oxygenase PpoA. Here we investigated the influence of ppo genes, that encode fatty acid oxygenases responsible for oxylipin biosynthesis, on CAS tolerance. The ppo mutants showed a very complex pattern of CAS susceptibility. PpoA and PpoC influence on CAS tolerance is mediated by MpkA phosphorylation and protein kinase A (PKA) activity. RNAseq transcriptional profiling and label-free quantitative proteomics (spectral counts) of the ppoA, and ppoC mutants showed that differentially expressed genes and proteins are related to secondary metabolites and carbohydrate metabolism. We tested several mutants of these differentially expressed genes encoding transcription factors and signal transduction proteins and some of them are more susceptible to CAS. We also characterized two clinical isolates, CNM7555 and IFM41607, that have decreased and increased susceptibility to CAS. CNM7555 does not have increased oxylipin production in the presence of CAS while the oxylipin induction upon CAS exposure is increased in the IFM41607, suggesting oxylipins are not the single mechanism involved in CAS tolerance in these isolates. Upon CAS exposure, CNM7555 has increased MpkA phosphorylation and PKA activity than IFM41607. Modulation of secondary metabolite production and carbohydrate metabolism is also essential in these clinical isolates for acquiring CAS tolerance. Our results reveal different aspects and genetic determinants involved in A. fumigatus CAS tolerance.
2024-11-13 | PXD054599 | Pride