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Acetylation-specific interference by anti histone H3K9ac intrabody results in precise modulation of gene expression

ABSTRACT: Acetylation-specific interference by anti histone H3K9ac intrabody results in precise modulation of gene expression

PROVIDER: PRJNA801236 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR17785537.fastq.gz	Fastqsanger.gz
	SRR17785538.fastq.gz	Fastqsanger.gz
	SRR17785539.fastq.gz	Fastqsanger.gz
	SRR17785540.fastq.gz	Fastqsanger.gz
	SRR17785541.fastq.gz	Fastqsanger.gz

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Similar Datasets

Acetylation-specific interference by anti histone H3K9ac intrabody results in precise modulation of gene expression

Project description:The goal of this study is to compared the global gene expression changes driven by the histone PTM-selective interference with those induced by the inhibition of the corresponding modifying enzymes. We chose site-specific histone H3 acetylation as a target for this comparison, and we investigated the transcriptomic response in yeast cells, either expressing the intrabody anti-H3K9ac scFv-58F or treated with HATs inhibitors (Curcumin and CPTH2)

2022-01-30 | GSE195547 | GEO

Acetylation-Specific Interference by Anti-Histone H3K9ac Intrabody Results in Precise Modulation of Gene Expression.

Project description:Among Histone post-translational modifications (PTMs), lysine acetylation plays a pivotal role in the epigenetic regulation of gene expression, mediated by chromatin modifying enzymes. Due to their activity in physiology and pathology, several chemical compounds have been developed to inhibit the function of these proteins. However, the pleiotropy of these classes of proteins represents a weakness of epigenetic drugs. Ideally, a new generation of epigenetic drugs should target with molecular precision individual acetylated lysines on the target protein. We exploit a PTM-directed interference, based on an intrabody (scFv-58F) that selectively binds acetylated lysine 9 of histone H3 (H3K9ac), to test the hypothesis that targeting H3K9ac yields more specific effects than inhibiting the corresponding HAT enzyme that installs that PTM. In yeast scFv-58F modulates, gene expression in a more specific way, compared to two well-established HAT inhibitors. This PTM-specific interference modulated expression of genes involved in ribosome biogenesis and function. In mammalian cells, the scFv-58F induces exclusive changes in the H3K9ac-dependent expression of specific genes. These results suggest the H3K9ac-specific intrabody as the founder of a new class of molecules to directly target histone PTMs, inverting the paradigm from inhibiting the writer enzyme to acting on the PTM.

| S-EPMC9408029 | biostudies-literature

ChIP-seq H3K9ac in sea cucumber

Project description:We presented a genome-wide characterization for H3K9 acetylation (H3K9ac) binding regions in normal temperature and heat-stress conditions via ChIP-seq. The results revealed H3K9ac was an extensive epigenetic modulation in A. japonicus. We further identified differentially acetylated regions (DARs) under heat stress.

2022-11-03 | GSE186066 | GEO

Genome-wide maps of H3K9Ac in wild type and sinhcaf mutant zebrafish embryos

Project description:H3K9Ac ChIP-Seq was conducted to investigate whether loss of sinhcaf increases the histone acetylation in the promoter region of kinesin family genes.Increased H3K9Ac ChIP-Seq peaks upon sinhcaf loss were detected in the kif26ab promoter region.

2022-03-15 | GSE198516 | GEO

Genome-wide analysis of the histone modification H3K9ac in Oryza sativa infested with Spodoptera frugiperda

Project description:The histone 3 lysine 9 acetylation (H3K9ac) is an epigenetic marker widely distributed in plant genome, which could eThe histone 3 lysine 9 acetylation (H3K9ac) is an epigenetic marker widely distributed in plant genome, which could enhance gene transcription involved in stress-responsive gene expression. The physiological and molecular mechanisms underlying plant responses to insects are being increasingly studied, while epigenetic modifications such as histone acetylation and their potential regulation at the genomic level of transcription of hidden genes in plants damaged by insects remain largely unknown. In current study, we provided the genome-wide profiles of H3K9ac in rice (Oryza sativa) infested by fall armyworm (Spodoptera frugiperda, FAW) using chromatin immunoprecipitation sequencing (ChIP-Seq) and RNA sequencing (RNA-seq). RNA-seq data revealed that 3269 and 4609 genes were up-regulated at 3 h and 12 h after infestation with FAW, respectively. ChIP-Seq analysis revealed 1617 and 2617 genes modified by H3K9ac in rice infested with FAW at 3 h and 12 h, respectively, and H3K9ac was mainly enriched in the transcription start sites of genes.

2024-05-31 | GSE232269 | GEO

Comparison of genomic H3K9ac status in CD4 T cells with diverse progress of chronic hepatitis B

Project description:Histone 3 lysine 9 acetylation (H3K9ac) at transcription initiation sites is a well known marker for actively initiating and transcribing genes.The purpose of the present study was to investigate the association between H3K9ac and diverse progress of HBV infection. We employed chromatin immunoprecipitation microarray (ChIP-chip) technology to profile and compare the variations of genes H3K9ac in CD4 T cells of the CHB patients at the different clinic phases. The results showed there were lots of different genes with H3K9ac among the study groups. Comparison of genomic H3K9ac status in CD4 T cells from CHB patients at the different clinic phases

2012-08-28 | E-GEOD-40365 | biostudies-arrayexpress

Comparison of genomic H3K9ac status in CD4 T cells with diverse progress of chronic hepatitis B

2012-08-28 | GSE40365 | GEO

ChIP-Seq of H3K9 acetylation for wildtype and ada2Δ cells in Cryptococcus neoformans

Project description:SAGA member Ada2 is required for the majority of H3K9 acetylation in C. neoformans. To identify specific genomic loci that exhibit Ada2-dependent H3K9 acetylation, we performed ChIP-Seq against H3K9ac in wildtype and ada2Δ cells. ChIP-Seq was performed using antibodies for H3K9ac in KN99 wildtype cells and ada2Δ cells. Input and IPed DNA was collected in triplicate from each strain and sequenced on an Illumnina HiSeq 2000 flow cell producing 84 million reads. Due to the lack of quality scores, raw reads are omitted from the submission.

2012-01-01 | E-GEOD-32075 | biostudies-arrayexpress

Changs in Histone 3 Lysine 9 Acetylation (H3K9ac) in Arabidopsis seedlings in response to light

Project description:Changs in Histone 3 Lysine 9 Acetylation (H3K9ac) in Arabidopsis seedlings in response to light

| PRJNA752040 | ENA

Histone H3 lysine9 acetylation, rather than lysine4 trimethylation, marks meiotic recombination hotspots and promotes recombination initiation in fission yeast

Project description:Histone modifications are associated with meiotic recombination hotspots, discrete sites with augmented recombination frequency. For example, trimethylation of histone H3 lysine4 (H3K4me3) marks most hotspots in budding yeast and mouse. Modified histones are known to regulate meiotic recombination partly by promoting DNA double strand break (DSB) formation, but the role and precise landscape of histone modifications at hotspots remain unclear. Here, we studied hotspot-associated modifications in fission yeast and found general features: acetylation of H3 lysine9 (H3K9ac) is strikingly elevated, and H3K4me3 is not significantly enriched. Remarkably, elimination of H3K9ac reduced binding of the DSB-inducing enzyme Rec12 and DSB at hotspots. We also found that the H3K4 metyltransferase Set1 promotes DSB formation at some loci, but it restricts Rec12 binding to hotspots. These results suggest that H3K9ac rather than H3K4me3 is a hotspot-associated mark involved in meiotic DSB formation in fission yeast. S.pombe cells in a pat1-114 background were induced to enter meiosis by the haploid meiosis system, and harvested one hour after the induction. ChIP were performed using anti-H3Cter, H3K9ac, -H3K14ac and -H3K4me3 antibodies. pat1-114 rad50S rec12+-FLAG cells in a wild type, H3K9A or set1+ deletion background were induced to enter meiosis by the haploid meiosis system, and harvested five hours after the induction. ChIP were performed using anti-FLAG antibodies.

2013-03-07 | E-GEOD-31648 | biostudies-arrayexpress

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