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Genome-winding binding profile of KDM5 in Drosophila larval prothoracic gland cells via Targeted DamID analysis

ABSTRACT: Genome-winding binding profile of KDM5 in Drosophila larval prothoracic gland cells via Targeted DamID analysis

PROVIDER: PRJNA952686 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR24087449.fastq.gz	Fastqsanger.gz
	SRR24087450.fastq.gz	Fastqsanger.gz
	SRR24087451.fastq.gz	Fastqsanger.gz
	SRR24087452.fastq.gz	Fastqsanger.gz
	SRR24087453.fastq.gz	Fastqsanger.gz

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Genome-winding binding profile of KDM5 in Drosophila larval prothoracic gland cells via Targeted DamID analysis

Project description:kdm5 is an essential gene in Drosophila that has critical developmental roles in the prothoracic gland cells of the larval ring gland. To profile KDM5 binding within these cells and this developmental stage, we performed Targeted DamID (TaDa). By profiling the nearest genes to significant TaDa peaks (FDR < 0.01), we identified 5815 candidate KDM5 target genes. Interestingly, 42% of these candidate KDM5 target genes appear to be conserved across multiple cellular contexts in Drosophila and span many cellular processes for future investigation.

2023-10-16 | GSE229076 | GEO

RNA-seq profiling of Drosophila larval ring glands of kdm5 null mutants

Project description:kdm5 is an essential gene in Drosophila that has critical developmental roles in the prothoracic gland cells of the larval ring gland. We performed a bulk transcriptome analysis of the larval ring gland in w[1118] (wild type) and kdm5[140] (null mutant) in order to identify genes in the prothoracic gland involved in the lethality of kdm5 null mutants. We found that the absence of kdm5 causes dysregulation of genes involved in various metabolic pathways. In particular, genes both bound by KDM5 and differentially expressed in this cell type are involved in regulation of mitochondrial biology and autophagy.

2023-10-16 | GSE229075 | GEO

KDM5 binding and kdm5 null mutant differential expression profiling of Drosophila prothoracic gland cells

Project description:KDM5 binding and kdm5 null mutant differential expression profiling of Drosophila prothoracic gland cells

| PRJNA952679 | ENA

RNA-seq analysis of de larval ventral nerve cord (VNC) from kdm5[L854F] and enzymatically inactive kdm5[JmjC*]

Project description:We performed a transcriptome analysis of the larval VNC in kdm5 WT, kdm5[L854F] and enzymatically inactive kdm5[JmjC] in order to identify genes contributing to the phenotypes observed in the mutants' neuromuscular junction (NMJ). We found that inactivation of the catalytic activity in kdm5[JmjC] causes dysregulation of genes related to glutamate metabolism while the mutation L854F leads to dysregulation of genes involved in microtubule cytoskeleton dynamics. We also found a group of genes dysregulated in both mutants that likely explain a common NMJ phenotype.

2021-03-16 | GSE159298 | GEO

Targeted DamID analyses of neural progenitor cells and immature neurons of kdm5[140] and kdm5 shRNA Drosophila larvae and pupae.

Project description:Mutations in the lysine demethylase 5 (KDM5) family of transcriptional regulators are associated with intellectual disability, yet little is known regarding their spatiotemporal requirements or neurodevelopmental contributions. Utilizing the mushroom body (MB), a major learning and memory center within the Drosophila brain, we demonstrate that KDM5 is required within ganglion mother cells and immature neurons for proper axogenesis. Moreover, the mechanism by which KDM5 functions in this context is independent of its canonical histone demethylase activity. Using in vivo transcriptional and binding analyses, we identify a network of genes directly regulated by KDM5 that are critical modulators of neurodevelopment. We find that KDM5 directly regulates the expression of prospero, a transcription factor that we demonstrate is essential for MB morphogenesis. Prospero functions downstream of KDM5 and binds to approximately half of KDM5-regulated genes. Together, our data provide evidence for a KDM5-Prospero transcriptional axis that is essential for proper MB development.

2021-03-16 | GSE156010 | GEO

DamID data for SUUR binding in 12-14h Embryo, larval salivary glands and larval brain

Project description:SUUR protein was found to be a major component of three repressive chromatin states named BLACK, BLUE and GREEN chromatins. Here we addressed a question of developmental dynamics of these chromatin states using SUUR as a marker. SUUR binding in larval salivary glands, brains and 12-14 hours embryos was determined using DamID technique.

2011-11-23 | GSE33873 | GEO

Targeted DamID analyses of neural progenitor cells and immature neurons of kdm5[140] and kdm5 shRNA Drosophila larvae and pupae.

Project description:Targeted DamID analyses of neural progenitor cells and immature neurons of kdm5[140] and kdm5 shRNA Drosophila larvae and pupae.

| PRJNA656307 | ENA

DamID data for SUUR binding in 12-14h Embryo, larval salivary glands and larval brain

2011-11-23 | E-GEOD-33873 | biostudies-arrayexpress

Proteomic analysis of Bombyx mori prothoracic glands from day 0 and day 6 of the 5th instar

Project description:The project aim was to identify the proteins expressed by the prothoracic gland cells during the final larval stage of the model insect, Bombyx mori.

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Expression profile of third instar larval salivary gland tissue

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