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The histone chaperone HIR establishes chromatin states controling nitrogen assimilation and virulence in Candida albicans

ABSTRACT: The histone chaperone HIR establishes chromatin states controling nitrogen assimilation and virulence in Candida albicans

PROVIDER: PRJNA662096 | ENA |

REPOSITORIES: ENA

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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 [RNA-seq]

| PRJNA661223 | ENA

The histone chaperone HIR establishes chromatin states controling nitrogen assimilation and virulence in Candida albicans [ATAC-seq]

Project description:The histone chaperone HIR establishes chromatin states controling nitrogen assimilation and virulence in Candida albicans [ATAC-seq]

| PRJNA661762 | ENA

The histone chaperone HIR establishes chromatin states controling nitrogen assimilation and virulence in Candida albicans

Project description:This SuperSeries is composed of the SubSeries listed below.

2020-12-31 | GSE157599 | GEO

The histone chaperone HIR establishes chromatin states controling nitrogen assimilation and virulence in Candida albicans [ATAC-seq]

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).

2020-12-31 | GSE157568 | GEO

The histone chaperone HIR establishes chromatin states controling nitrogen assimilation and virulence in Candida albicans [RNA-seq]

Project description: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).

2020-12-31 | GSE157411 | GEO

SWI/SNF and the histone chaperone Rtt106 drive expression of the Pleiotropic Drug Resistance network 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.

2022-02-21 | E-MTAB-9787 | biostudies-arrayexpress

Antisense-mediated repression of SAGA-dependent genes involves the HIR histone chaperone

Project description:Eukaryotic genomes are pervasively transcribed by RNA polymerase II (RNAPII), and transcription of long non-coding RNAs often overlaps with coding gene promoters. This might lead to coding gene repression in a process named Transcription Interference (TI). In Saccharomyces cerevisiae (S. cerevisiae), TI is mainly driven by antisense non-coding transcription and occurs through re-shaping of promoter Nucleosome-Depleted Regions (NDRs). In this study, we developed a genetic screen to identify new players involved in Antisense-Mediated Transcription Interference (AMTI). Among the candidates, we found the HIR histone chaperone complex known to be involved in de novo histone deposition. Using genome-wide approaches, we reveal that HIR-dependent histone deposition represses the promoters of SAGA-dependent genes via antisense non-coding transcription. However, while antisense transcription is enriched at promoters of SAGA-dependent genes, this feature is not sufficient to define the mode of gene regulation. We further show that the balance between HIR-dependent nucleosome incorporation and transcription factor binding at promoters directs transcription into a SAGA- or TFIID-dependent regulation. This study sheds light on a new connection between antisense non-coding transcription and the nature of coding transcription initiation.

2021-06-03 | GSE175991 | GEO

Low red to far-red light environments alter nitrogen assimilation in corn (Zea mays)

Project description:The goal of this work was to investigate the influence of low red to far-red (R:FR) signals generated by a biological weedy and an artificial source of far-red light on the nitrate assimilation pathway in maize. In the absence of direct resource competition, far-red light reflected from neighboring weeds compromises light quality (red to far-red ratio; R/FR) and causes a wide range of morphological and physiological responses at early growth stages of crop plants. This study has investigated the effects of low R/FR light signals on nitrate assimilation in maize seedlings. The transcript levels of genes, metabolites, and activities of enzyme in the nitrate assimilation pathway under a biological and a simulated low R:FR light environment were compared with a high R:FR control environment. Low R:FR signals stimulated nitrate accumulation in maize leaves, which did not appear to result from the upregulation of nitrate transporter genes. A significant reduction in ferredoxin-dependent glutamine:2-oxoglutarate aminotransferase activity appears to play a major role in nitrate accumulation under low R:FR light environments, while activities of other enzymes of the nitrate assimilation pathway remain unchanged.

2022-09-27 | GSE213949 | GEO

Antisense-mediated repression of SAGA-dependent genes involves the HIR histone chaperone

Project description:Antisense-mediated repression of SAGA-dependent genes involves the HIR histone chaperone

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Microorganisms of inorganic nitrogen assimilation in acid upland soils

Project description:Microorganisms of inorganic nitrogen assimilation in acid upland soils Raw sequence reads

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