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Essential role of Cp190 in physical and regulatory boundary formation in Drosophila [ChIP-seq]

ABSTRACT: Essential role of Cp190 in physical and regulatory boundary formation in Drosophila [ChIP-seq]

PROVIDER: PRJNA748171 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR15192700_1.fastq.gz	Fastqsanger.gz
	SRR15192700_2.fastq.gz	Fastqsanger.gz
	SRR15192701_1.fastq.gz	Fastqsanger.gz
	SRR15192701_2.fastq.gz	Fastqsanger.gz
	SRR15192702_1.fastq.gz	Fastqsanger.gz

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Essential role of Cp190 in physical and regulatory boundary formation in Drosophila

Project description:Essential role of Cp190 in physical and regulatory boundary formation in Drosophila

| PRJNA748025 | ENA

Essential role of Cp190 in physical and regulatory boundary formation in Drosophila

Project description:Animal genomes fold into contact domains defined by enhanced internal contact frequencies with debated functions in establishing independent gene regulatory domains. A large fraction of contact domains in mammals are formed by stalling of chromosomal loop-extruding cohesin by CTCF at domain boundaries. 90% of domain boundaries in Drosophila form CTCF-independently, and other proteins were proposed to form chromosomal loops with dual functions of segregating promoters from inappropriate regulatory elements and connecting distal regulatory elements to their correct targets. Here, we genetically ablate the ubiquitous boundary-associated factor Cp190 and assess impacts on genome folding and transcriptional regulation in embryos. Our results reveal that Cp190 is a major factor required for contact domain boundary formation and gene insulation in Drosophila.

2022-05-30 | PXD027795 | Pride

Essential role of Cp190 in physical and regulatory boundary formation in Drosophila [HiC]

Project description:Essential role of Cp190 in physical and regulatory boundary formation in Drosophila [HiC]

| PRJNA748170 | ENA

Essential role of Cp190 in physical and regulatory boundary formation in Drosophila [Capture-C]

Project description:Essential role of Cp190 in physical and regulatory boundary formation in Drosophila [Capture-C]

| PRJNA796548 | ENA

Essential role of Cp190 in physical and regulatory boundary formation in Drosophila [HiC]

Project description:While Drosophila has widespread contact domains, most domain boundaries are formed independently of CTCF by unclear mechanisms. We genetically ablate the ubiquitous boundary-associated factor Cp190 and examine impacts on genome folding and developmental gene regulation in Drosophila embryos. We find that Cp190 is widely required to form fly domain boundaries that are distal from transcribed gene promoters, while promoter proximal boundaries are unaffected by Cp190 loss.

2022-05-12 | GSE180375 | GEO

Essential role of Cp190 in physical and regulatory boundary formation in Drosophila [ChIP-seq]

2022-05-12 | GSE180374 | GEO

Essential role of Cp190 in physical and regulatory boundary formation in Drosophila [Capture-C]

2022-05-12 | GSE193530 | GEO

Essential role of Cp190 in physical and regulatory boundary formation.

Project description:Boundaries in animal genomes delimit contact domains with enhanced internal contact frequencies and have debated functions in limiting regulatory cross-talk between domains and guiding enhancers to target promoters. Most mammalian boundaries form by stalling of chromosomal loop-extruding cohesin by CTCF, but most Drosophila boundaries form CTCF independently. However, how CTCF-independent boundaries form and function remains largely unexplored. Here, we assess genome folding and developmental gene expression in fly embryos lacking the ubiquitous boundary-associated factor Cp190. We find that sequence-specific DNA binding proteins such as CTCF and Su(Hw) directly interact with and recruit Cp190 to form most promoter-distal boundaries. Cp190 is essential for early development and prevents regulatory cross-talk between specific gene loci that pattern the embryo. Cp190 was, in contrast, dispensable for long-range enhancer-promoter communication at tested loci. Cp190 is thus currently the major player in fly boundary formation and function, revealing that diverse mechanisms evolved to partition genomes into independent regulatory domains.

| S-EPMC9106302 | biostudies-literature

Essential role of Cp190 in physical and regulatory boundary formation in Drosophila

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

2022-05-12 | GSE180376 | GEO

CP190 and CTCF mediated enhancer blocking is augmented by SUMOylation

Project description:Chromatin insulators shield promoters and chromatin domains from neighbouring enhancers or chromatin regions with opposing activities. Insulator binding proteins and their cofactors mediate the boundary function. In general, covalent modification of proteins by the Small Ubiqutin-like Modifier (SUMO) is an important mechanism to control the interaction of proteins within complexes. Here we addressed the impact of SUMO in respect to insulator function, chromatin binding of insulator factors and formation of insulator speckles. SUMOylation augments the enhancer blocking function of four different insulator sequences and increases the genome-wide binding of the insulator cofactor CP190. A model is discussed with enhanced chromatin binding of SUMOylated CP190 causing fusion of insulator speckles, which may allow for more efficient insulation.

2017-08-07 | GSE96581 | GEO

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