The histone chaperone HIR establishes chromatin states controling nitrogen assimilation and virulence in Candida albicans [RNA-seq]
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ABSTRACT: Transcriptomic analysis of wild type C. albicans and a HIR1 gene deletion mutant during nutrient rich growth (YPD) and upon the shift to nitrogen starvation in yeast carbon base medium supplemented with BSA (YCB-BSA medium).
Project description:ATAC-seq analysis of wild type C. albicans and a HIR1 gene deletion mutant during nutrient rich growth (YPD) and upon the shift to nitrogen starvation in yeast carbon base medium supplemented with BSA (YCB-BSA medium).
Project description:The histone chaperone HIR establishes chromatin states controling nitrogen assimilation and virulence in Candida albicans [RNA-seq]
Project description:The histone chaperone HIR establishes chromatin states controling nitrogen assimilation and virulence in Candida albicans [ATAC-seq]
Project description:To infer transcriptional networks of nitrogen utilization , Candida albicans was exposed to nitrogen starvation for four hours and then offered arginine or BSA as sole nitrogen source. Time-series transcription data was obtained from both the starvation and the feeding periods, and the response to different nitrogen availability was used for network modelling with selected genes.
Project description:Genome-wide binding of the histone chaperone Rtt106 was analysed by ChIP-seq. Rtt106 binding was analysed in WT and the mutant backgrounds lacking transcription factors Pdr1 and Pdr3, the HIR histone chaperone subunit Hir1, or the boundary protein Yta7. Two biological replicates had been submitted. mRNA profiles in WT and the mutants lacking Rtt106, Pdr1, Pdr3 or the SWI/SNF subunit Snf2 were analysed by RNA-seq. mRNA profiles in those yeast cells grown in rich media (YPD) and in the glucose-starved condition (YEP) and in response to ketoconazole (YEP+ket) were analysed. Three biological samples for each condition had been submitted.
Project description:To identify genes regulated by the transcription factor Grf10, we compared expression patterns of a grf10-null mutant relative to the isogenic WT at 1-hr and 4-hr after innoculation in YPD medium.
Project description:Transcriptional profiling of Candida albicans after 3 h phagocytosis by vehicle DMSO-treated macrophages (intact, expanding phagosomes) or calcium chelator BAPTA-AM-treated macrophages (inhibits lysosomal repair of expanding phagosomes, leading to phagosome rupture) to determine the effect of preventing phagosome expansion on C. albicans gene expression after phagocytosis by macrophages. Cultivation of Candida only for 3 h in DMEM-FBS cell culture medium or YPD complex medium as non-phagocytosis control conditions.