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Identifying targets of DSX with DamID-chip

ABSTRACT: We have used microarrays to identify DSX occupancy signal in adult female fatbody using the DamID protocol.

ORGANISM(S): Drosophila melanogaster

PROVIDER: GSE49478 | GEO | 2014/10/30

SECONDARY ACCESSION(S): PRJNA214014

REPOSITORIES: GEO

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Identifying targets of DSX with DamID-chip

Project description:We have used microarrays to identify DSX occupancy signal in adult female fatbody using the DamID protocol. We have performed DamID-chip on adult female fatbody with three biological replicates.

2014-10-30 | E-GEOD-49478 | biostudies-arrayexpress

Identifying targets of DSX with DamID-seq

Project description:We have adapted the DamID protocol for use with high throughput sequencing. We have used DamID to identify the positions within the Drosophila genome where the transcription factor DSX is bound. We sequenced DpnI-digested genomic DNA from fly tissues containing UAS-Dam (control) or UAS-Dam-DsxF or UAS-Dam-DsxM. We have performed DamID-seq on adult male and female fatbody and on ovary. We used two biological replicates for each tissue and sex.

2014-10-30 | E-GEOD-27269 | biostudies-arrayexpress

Identifying targets of DSX with DamID-seq

2014-10-30 | GSE27269 | GEO

Identifying Targets of DSX with ChIP-seq

Project description:We have used ChIP-seq on Drosophila S2 cells to characterize genome-wide DSX occupancy.

2014-10-30 | GSE49511 | GEO

Nucleoporin107 mediates female sexual differentiation via Dsx

Project description:We recently identified a missense mutation in Nucleoporin107 (Nup107; D447N) underlying XX-ovarian-dysgenesis (XX-OD), a disorder characterized by underdeveloped and dysfunctional ovaries. Specific knockdown of Nup107 in the somatic gonadal cells and moreover, modelling of the human mutation in Drosophila result in ovarian-dysgenesis-like phenotypes in female flies. The aberrant phenotypes in larval and adult ovaries compromised for Nup107 are associated with hyperactivation of BMP signalling. Transcriptomic analysis identified the somatic sex-determination gene Doublesex (dsx) and the extracellular metalloprotease AdamTS-A as targets of Nup107. Either loss or gain of Dsx in the gonadal soma is sufficient to respectively mimic or rescue the phenotypes induced by Nup107 loss. Furthermore, adamTS-A is transcriptionally regulated by Dsx, and its knockdown in the somatic gonad hyperactivates BMP signaling and to a large extent recapitulates loss of Nup107 phenotypes. Thus, Dsx acts downstream of Nup107 to impact female germline stem cells via sex-specific modulation of the BMP pathway.

2022-03-21 | GSE141094 | GEO

Identifying targets of DSX with ChIP-seq, DamID-seq and DamID-chip and transcriptional response to DSX isoform switch

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

2014-10-30 | GSE49480 | GEO

RNA-seq of worker antennae of honeybees (Apis mellifera) with a dsx stop/stop mutation

Project description:Transcriptional profiling of the antennae of adult honeybee workers with a dsx stop/stop mutation and wild-type workers was performed by RNA-Seq. Gene expression of the dsx stop/stop and wild type female workers was compared.

2024-07-10 | GSE270222 | GEO

Nucleoporin107 mediates female sexual differentiation via Dsx

Project description:Nucleoporin107 mediates female sexual differentiation via Dsx

| PRJNA592065 | ENA

damidseq_pipeline: an automated pipeline for processing DamID sequencing datasets

Project description:DamID is a powerful technique for identifying regions of the genome bound by a DNA-binding (or DNA-associated) protein. Currently no method exists for automatically processing next-generation sequencing DamID (DamID-seq) data, and the use of DamID-seq datasets with normalisation based on read-counts alone can lead to high background and the loss of bound signal. DamID-seq thus presents novel challenges in terms of normalisation and background minimisation. We describe here damidseq_pipeline, a software pipeline that performs automatic normalisation and background reduction on multiple DamID-seq FASTQ or BAM datasets. Single replicate profiling of pol II occupancy in 3rd instar larval neuroblasts of Drosophila

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Identifying the transcriptional targets of the Drosophila transcription factor Ets21c via Targeted DamID

Project description:Tissue homeostasis relies on stem cell activity which drives replacement of differentiated cells to maintain tissue integrity and function. The stress-inducible transcription factor Ets21c promotes tissue renewal in the Drosophila adult intestine by controlling intestinal stem cell proliferation and apoptosis of mature enterocytes. To determine how Ets21c fulfills these distinct tasks in the different cell types of the gut, we exploited a genome-wide in vivo Targeted DamID mapping approach to identify its putative direct targets. In young unstressed midguts, Ets21c contacts regulatory loci occupied by as well as devoid of the Polymerase II binding. Follow-up functional genetic studies in intestinal stem cells and enterocytes demonstrate that Ets21c controls cell type-specific sets of target genes that orchestrate cellular behavior via intrinsic and non-autonomous signaling mechanisms. Ets21c thus emerges as a vital determinant of adult health and lifespan.

2019-06-04 | GSE122170 | GEO

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