The fission yeast Schizosaccharomyces pombe: H3K9me2 and Fep1-GFP ChIP-chip
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ABSTRACT:
PROVIDER: PRJNA412974 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:ChIP-chip analyses of H3K9me2 (in WT 30°C, WT 18°C, ccr4∆ 18°C, ccr4∆fep1 18°C, ago1∆ 18°C, WT + 2,2′-bipyridyl 18°C), Fep1-GFP (in WT), Ssn6-MYC ChIP in WT and Fep1∆.
2018-05-08 | GSE104528 | GEO
Project description:Genome wide map of H3K9me2 in 4 different strains of fission yeast Schizosaccharomyces pombe.
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Project description:The aim was to compare the levels of histone H3 dimethylation at lysine 9 (H3K9me2) in wild-type and dbl2 knock-out Schizosaccharomyces pombe cells. Fission yeast cultures were grown in the complex YES medium to exponential phase and chromatin immunoprecipitation was carried out using anti-H3 and anti-H3K9me2 antibodies. Two independent biological replicates were performed. The resulting IP and input DNA samples were sequenced using Illumina sequencing (35 nt PE). H3K9me2 occupancy in each sample was normalized to the corresponding total H3 occupancy, and normalized H3K9me2 levels were compared between WT and dbl2 knock-out.
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Project description:Genome wide map of H3K9me2 in fission yeast Schizosaccharomyces pombe.
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Project description:We have performed a genome wide investigation for the binding locations of the transcriptional co-repressor proteins Ssn6, Tup11 and Tup12 in the fission yeast Schizosaccharomyces pombe. We have used a ChIP protocol described previously (Robyr et al, 2003) with microarrays containing ORF and IGR fragments representing the complete fission yeast genome (Wiren et al, 2005). Keywords: ChIP-CHIP
2006-11-15 | GSE4506 | GEO
Project description:We have performed a genome wide investigation for the binding locations of the transcriptional co-repressor proteins Ssn6, Tup11 and Tup12 in the fission yeast Schizosaccharomyces pombe. We have used a ChIP protocol described previously (Robyr et al, 2003) with microarrays containing ORF and IGR fragments representing the complete fission yeast genome (Wiren et al, 2005). Keywords: ChIP-CHIP
2006-11-15 | GSE4505 | GEO
Project description:We have performed a genome wide investigation for the binding locations of the transcriptional co-repressor proteins Ssn6, Tup11 and Tup12 in the fission yeast Schizosaccharomyces pombe. We have used a ChIP protocol described previously (Robyr et al, 2003) with microarrays containing ORF and IGR fragments representing the complete fission yeast genome (Wiren et al, 2005). Keywords: ChIP-CHIP
2006-11-15 | GSE4503 | GEO
Project description:We report gene expression profiling in the fission yeast Schizosaccharomyces pombe. We performed high-throughput sequencing of RNA isolated from wild-type, clr6-1, ago1∆, red1∆, rrp6∆, clr4∆, ccr4∆, ccr4∆fep1, wild-type cells treated with an iron chelator (2,2′-bipyridyl; DIP) grown at 30°C or 18°C and ccr4∆fep1 cells treated with DIP at 18C. We find that many stress response genes, transmembrane transporters, and non-coding RNAs are up-regulated in cells cultured at 18°C. Our analyses concluded that Clr4 and Ccr4 are important for controlling transcript levels at 18°C and uncovered a role for iron homeostasis in adaptive genome control.
2018-05-08 | GSE104546 | GEO
Project description:Iron and phosphate are essential micronutrients with partially interconnected homeostatic control; however, the underlying transcriptional mechanisms that integrate these signals in the fission yeast Schizosaccharomyces pombe, remain unclear. Fep1 (GATA-type repressor) is a key regulator of iron-uptake genes, whereas Pho7 (Zn2Cys6-family transcription factor) drives phosphate starvation response. However, whether each of two factors influences the target regulon controlled by the other remains unclear. We combined genome-wide chromatin immunoprecipitation sequencing, RNA sequencing, and auxin-inducible degron-mediated acute depletion to define the joint Fep1–Pho7 transcriptional control and regulatory landscapes under defined iron and phosphate conditions. Unexpectedly, these analyses showed extensive overlap in chromatin occupancy between Fep1 and Pho7 at a subset of target promoters. Fep1 bound not only to canonical iron-uptake genes but also the pho7+ locus and multiple phosphate-responsive promoters, whereas Pho7 showed association with a defined subset of Fep1 targets. Acute depletion experiments showed that Fep1 loss substantially increased Pho7 chromatin occupancy at iron-responsive promoters. Under iron-depleted conditions, Pho7 contributed to the transcriptional activation of specific Fep1 target genes (fio1+/fip1+ and str3+), which indicated that Pho7 supports iron uptake gene expression when Fep1 repression is attenuated. Condition-dependent binding analyses showed that iron availability influences the relative regulatory contribution of the two factors at shared loci. These findings support a model in which Fep1 and Pho7 form a cross-regulatory module that converges on shared genes to enable iron-dependent redistribution of their influence. Together, these findings suggest a mechanistic framework for integrating iron and phosphate signals at the promoter level in fission yeast.
2026-08-20 | GSE344405 | GEO
Project description:We report the high-throughput profiling of H3K9me2 in fission yeast Schizosaccharomyces pombe. By obtaining 1-10 ng immunoprecipitated DNA, we generated genome-wide H3K9me2 maps in single deletions of the selected chromatin modulating genes, histone H3 mutants and ccp1Δepe1Δ double mutant in fission yeast. We find that the subtelomeric heterochromatin distribution is highly variable under different genetic perturbations and small heterochromatin islands are formed at clr4 and clr2 loci in ccp1Δepe1Δ.
2018-09-12 | GSE119589 | GEO