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ATM kinase inhibition in glial cells activates the innate immune response and causes neurodegeneration in Drosophila

ABSTRACT: Analysis of the effects of ATM loss on gene expression to identify causes of neurodegeneration. ATM levels were reduced ubiquitously via the temperature-sensitive ATM^8 allele, or via tissue-specific RNAi of ATM (ATMi) using the Gal4/UAS expression system in neurons (Elav-GAL4 and ElavC155-GAL4) or glial cells (Repo-GAL4).

ORGANISM(S): Drosophila melanogaster

PROVIDER: GSE34315 | GEO | 2011/12/10

SECONDARY ACCESSION(S): PRJNA151497

REPOSITORIES: GEO

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ATM kinase inhibition in glial cells activates the innate immune response and causes neurodegeneration in Drosophila

Project description:Analysis of the effects of ATM loss on gene expression to identify causes of neurodegeneration. ATM levels were reduced ubiquitously via the temperature-sensitive ATM^8 allele, or via tissue-specific RNAi of ATM (ATMi) using the Gal4/UAS expression system in neurons (Elav-GAL4 and ElavC155-GAL4) or glial cells (Repo-GAL4). A 20-chip study using total RNA representing 2 replicates of 3 control genotypes (ATM^8/+, Repo-GAL4, and ElavC155-GAL4) and 3 experimental genotypes (ATM^8/ATM^8, Repo-ATMi, ElavC155-ATMi), and 4 replicates each of a control (Elav-GAL4) and experimental (Elav-ATMi) genotype

2011-12-10 | E-GEOD-34315 | biostudies-arrayexpress

RNA-sequencing of Drosophila expressing mutant Huntingtin in neurons or glia

Project description:We performed RNA-seq on head tissue collected from Drosophila expressing N-terminal (UAS-HTTNT231Q128) or full-length (UAS-HTTFL200Q) human mHTT in neurons (elav-GAL4) or glia (repo-GAL4).

2021-06-03 | GSE157287 | GEO

Effects of Overexpression of Dube3a in Drosophila Brain

Project description:Fly Dube3a was expressed using either the neuronal driver (elav-GAL4) or the glial driver (Repo-GAL4). RNAseq data was compared among groups (elav>Dube3a), (repo>Dube3a) and (Dube3a alone). Expression was measured in whole dissected fly brain.

2019-12-31 | GSE138562 | GEO

Gliopathic Bang Sensitive Siezure Common Expression

Project description:In order to identify common gene expression across other gliopathic bang senstiive genes (i.e. genes that when knocked down or over expressed by repo-GAL4 cause seizures) we crossed six UAS-RNAi or UAS-over-expression lines for known bang senstive genes to repo-GAL4. We pooled total RNA from brains of these animals in equal amounts and ran microarray analysis to search for transcripts that are common among these six seizure associated genes.

2019-12-31 | GSE138568 | GEO

RNA-Seq of whole Drosophila brains (mid-pupal stage) with panneuronal pdm3 knockdown and controls

Project description:Through an RNAi-based screen, we identified a gene, pdm3, required for sleep maturation in Drosophila. Pdm3, a transcription factor, coordinates an early developmental program that prepares the brain to later execute high levels of juvenile adult sleep. Through temporal mapping, we found that pdm3 acts during the mid-pupal stage of Drosophila development to control sleep ontogeny. As such, we profiled RNA expression in whole brains at this stage of development to identify possible downstream transcriptional changes in the setting of panneuronal pdm3 knockdown (Elav-GAL4> UAS pdm3 RNAi) and controls (Elav-GAL4 / +).

2020-03-22 | GSE147337 | GEO

The E3 Ligase CUL3 physically interacts with TANGO10 protein in vivo

Project description:List of protein scores for putative TANGO10 interactors from mass spectrometry analysis of FLAG-tagged TANGO10 using either elav-GAL4 or tim-GAL4 at both ZT10 and ZT 22, as determined using Proteome Discoverer software (ThermoFisher). Fly heads from GAL4 heterozygotes were used as controls. The hits from FLAG-tagged twenty-four (TYF) proteomics were also excluded from the list to increase TANGO10-specificity. Proteins listed are those present in at least one elav-GAL4 sample and at least one tim-GAL4 sample but no negative controls.

2021-11-02 | PXD029326 | Pride

Project description:We applied TRAP-seq to adult flies expressing GFP tagged Rpl10 in the glial cells (with Repo-Gal4) to look for genes whose translation are affect at different time points after recieving TBI

2021-03-31 | GSE164377 | GEO

RNA-Seq of whole Drosophila larval central nervous systems (mid-3rd instar stage, central brain + ventral nerve cord) with panneuronal ISWI knockdown and controls

Project description:Sleep disruptions are among the most commonly-reported symptoms across neurodevelopmental disorders (NDDs), but mechanisms linking brain development to normal sleep are largely unknown. From a Drosophila screen of human NDD-associated risk genes, we identified the chromatin remodeler Imitation SWItch/SNF (ISWI) to be required for adult fly sleep. To better understand the mechanisms by which ISWI regulates sleep, we performed RNA-Seq analysis on mid-3rd instar larval central nervous systems (central brain + ventral nerve cord) in the setting of pan-neuronal ISWI knockdown (elav-GAL4>UAS-ISWI RNAi) compared to controls (elav-GAL4;+). We chose mid-3rd instar because temporal mapping revealed ISWI knockdown during this pre-adult developmental stage led to adult fly sleep deficits.

2020-11-02 | GSE160591 | GEO

Microarray analysis of a Drosophila dopamine transporter mutant, fumin (fmn)

Project description:We previously found a short sleeper mutant, fmn, and identified its mutation in the dopamine transporter gene. In an attempt to discover additional sleep related genes in Drosophila, we carried out a microarray analysis comparing mRNA expression in heads of fmn and control flies and found differentially expressed genes. Next, using the pan-neuronal Gal4 driver elav-Gal4 and UAS-RNA interference (RNAi) to knockdown individual genes, we performed a functional screen. We found that knockdown of the NMDA type glutamate receptor channel gene (Nmdar1) reduced sleep.

2015-06-01 | GSE56149 | GEO

RNA-seq identifies genes that are regulated by SAGA deubiquitinase activity in glial nuclei of the Drosophila central nervous system during larval development

Project description:Purpose: Next-generation sequencing (NGS) was used to elucidate genes in Drosophila visual system glia that are sensitive to impairment of the deubiquitinase activity of the Spt-Ada-Gcn5 Acetyltransferase (SAGA) complex. Methods: The nuclear envelope of glial cells was genetically labled with a KASH-GFP fusion protein using the Gal4/UAS binary expression system and repo-Gal4 as driver in wild-type, nonstop and sgf11 third instar larvae. GFP-labeled glial nuclei were released by homogenization and then isolated from the central nervous system/eye antennal disc complex of Drosophila melanogaster third instar larvae from each genotype, and mRNA was extracted. For RNA-seq, dsDNA was generated using the Ovation RNA-Seq System V2 (Nugen technologies), DNA libraries were generated using standard methods (Illumina), and paired-end 100-base fragements were sequenced on an Illumina HiSeq2500 next generation sequencer. Result: EdgeR analysis with significance cut-off of FDR<0.01 identified 629 genes that are significantly downregulated, and 779 genes that are significantly upregulated, in both the nonstop and sgf11 visual system glia as compared to wild-type glia.

2016-06-09 | GSE75681 | GEO

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