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Genome organization regulates nuclear pore complex formation and promotes differentiation during Drosophila oogenesis

ABSTRACT: Genome organization regulates nuclear pore complex formation and promotes differentiation during Drosophila oogenesis

PROVIDER: PRJNA1053398 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR26856048.fastq.gz	Fastqsanger.gz
	SRR26856049.fastq.gz	Fastqsanger.gz
	SRR26856050.fastq.gz	Fastqsanger.gz
	SRR26856051.fastq.gz	Fastqsanger.gz
	SRR26856052.fastq.gz	Fastqsanger.gz

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Genome organization regulates nuclear pore complex formation and promotes differentiation during Drosophila oogenesis [CUT&RUN]

Project description:Genome organization regulates nuclear pore complex formation and promotes differentiation during Drosophila oogenesis [CUT&RUN]

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Genome organization regulates nuclear pore complex formation and promotes differentiation during Drosophila oogenesis [RNA-seq]

Project description:Genome organization regulates nuclear pore complex formation and promotes differentiation during Drosophila oogenesis [RNA-seq]

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Genome organization regulates nuclear pore complex formation and promotes differentiation during Drosophila oogenesis [RNA-Seq2]

Project description:Genome organization regulates nuclear pore complex formation and promotes differentiation during Drosophila oogenesis [RNA-Seq2]

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Genome organization regulates nuclear pore complex formation and promotes differentiation during Drosophila oogenesis [RNA-Seq2]

Project description:Genome organization can regulate gene expression and promote cell fate transitions. The differentiation of germline stem cells (GSCs) to oocytes in Drosophila involves changes in genome organization mediated by heterochromatin and the nuclear pore complex (NPC). Heterochromatin represses germ-cell genes during differentiation and NPCs anchor these silenced genes to the nuclear periphery, maintaining silencing to allow for oocyte development. Surprisingly, we find that genome organization also contributes to NPC formation, mediated by the transcription factor Stonewall (Stwl). As GSCs differentiate, Stwl accumulates at boundaries between silenced and active gene compartments. Stwl at these boundaries plays a pivotal role in transitioning germ-cell genes into a silenced state and activating a group of oocyte genes and Nucleoporins (Nups). The upregulation of these Nups during differentiation is crucial for NPC formation and further genome organization. Thus, crosstalk between genome architecture and NPCs is essential for successful cell fate transitions.

2024-05-29 | GSE267732 | GEO

Genome organization regulates nuclear pore complex formation and promotes differentiation during Drosophila oogenesis [RNA-seq]

2024-05-29 | GSE248057 | GEO

Genome organization regulates nuclear pore complex formation and promotes differentiation during Drosophila oogenesis [CUT&RUN]

Project description:Genome organization can regulate gene expression and promote cell fate transitions. The differentiation of germline stem cells (GSCs) to oocytes in Drosophila involves changes in Genome organization mediated by heterochromatin and the nuclear pore complex (NPC). Heterochromatin represses germ-cell genes during differentiation and NPCs anchor these silenced genes to the nuclear periphery, maintaining silencing to allow for oocyte development. Surprisingly, we find that genome organization also contributes to NPC formation, mediated by the transcription factor Stonewall (Stwl). As GSCs differentiate, Stwl accumulates at boundaries between silenced and active gene compartments. Stwl at these boundaries plays a pivotal role in transitioning germ-cell genes into a silenced state and activating a group of oocyte genes and Nucleoporins (Nups). The upregulation of these Nups during differentiation is crucial for NPC formation and further genome organization. Thus, crosstalk between genome architecture and NPCs is essential for successful cell fate transitions.

2024-05-29 | GSE250350 | GEO

Genome organization regulates nuclear pore complex formation and promotes differentiation during Drosophila oogenesis.

| S-EPMC10680722 | biostudies-literature

High-precision mapping of nuclear pore-chromatin interactions reveals new principles of genome organization at the nuclear envelope

Project description:The role of nuclear pore complexes (NPCs) in genome organization remains poorly characterized due to technical limitations in probing genome-wide protein-DNA interactions that are specific to the nuclear envelope. Here, we developed a sensitive method, NPC-DamID, which combines in vitro reconstitution of nuclear import and DamID technology. This fixation-free method specifically identifies genomic DNA interactions at the NPCs in intact nuclei. We found that NPCs are preferentially associated with common and hierarchically arranged super-enhancers (SEs) across multiple cells and tissue types. We also uncovered phase-separated condensates at NPCs that compartmentalize and concentrate transcriptional coactivators and structural proteins at SE-regulated genes. Our results support the idea that NPCs are sites of anchoring SE regulatory hubs through their interaction with CTCF and also maintains the conformation of SEs through interaction with structural proteins of SEs like Med1 and PolII.

2021-08-02 | GSE176106 | GEO

Genome organization regulates nuclear pore complex formation and promotes differentiation during <i>Drosophila</i> oogenesis.

Project description:Genome organization can regulate gene expression and promote cell fate transitions. The differentiation of germline stem cells (GSCs) to oocytes in Drosophila involves changes in genome organization mediated by heterochromatin and the nuclear pore complex (NPC). Heterochromatin represses germ cell genes during differentiation, and NPCs anchor these silenced genes to the nuclear periphery, maintaining silencing to allow for oocyte development. Surprisingly, we found that genome organization also contributes to NPC formation, mediated by the transcription factor Stonewall (Stwl). As GSCs differentiate, Stwl accumulates at boundaries between silenced and active gene compartments. Stwl at these boundaries plays a pivotal role in transitioning germ cell genes into a silenced state and activating a group of oocyte genes and nucleoporins (Nups). The upregulation of these Nups during differentiation is crucial for NPC formation and further genome organization. Thus, cross-talk between genome architecture and NPCs is essential for successful cell fate transitions.

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Meiotic Nuclear Pore Complex Modularity Provides Key Insights into Nuclear Basket Organization

Project description:Using phosphoproteomics and time-lapse fluorescence microscopy, we report that NPCs nuclear pore complexes (NPCs) undergo two distinct modularity events for the nucleoporins Nup60 and Nup2 during budding yeast meiosis: partial and full nuclear basket detachment.

2022-12-08 | PXD033245 | Pride

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