Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

A Drosophila chitinase-like protein has an immune function.

ABSTRACT: In the present study we analyzed the function of one member of Drosophila CLPs namely Drosophila IDGF3 with a special focus on immunity. We found that Idgf3 mutants are homozygous viable, and have defects in hemolymph clotting, which is the earliest of Drosophila larvae response after injury. We could further demonstrate that IDGF3 contributes to fly immunity: idgf3 mutants show increased sensitivity to Gram-negative bacteria as well as increased mortality after nematode infections. IDGF3 overexpression leads to a hyper-coagulation phenotype in larvae and a decrease in viability of adult flies. Transcription profiling further confirmed that IDGF3 is involved in the activation of innate defense mechanisms and signal pathways connected to wound healing and regenerative processes. A large fraction of immune- and regenerative genes require IDGF3 for their induction, suggesting that ÎÃÃ´ similar to Chi3l1- IDGF3 is a key regulators of the epithelial response to injury and infection.

ORGANISM(S): Drosophila melanogaster

SUBMITTER: Hynek Strnad

PROVIDER: E-MTAB-3478 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

The Drosophila immune response towards entomopathogenic nematodes and their associated bacteria.

Project description:Entomopathogenic nematodes (EPNs) of the genera Heterorhabditis are obligate and lethal insect parasites. In recent years they have been used increasingly as biological control agents. These EPNs are symbiotically associated with bacteria of the genera Photorhabdus. The bacterial symbionts are essential to kill the host (within 24-48 hours) and digest its tissues to provide nutrients for themselves as well for expanding nematodes. Drosophila larvae are suitable insect hosts and part of the tripartite model system we used before to show the importance of haemolymph clotting and eicosanoids during the infection. We used the well-established tripartite model (Drosophila, nematodes, bacteria), DNA chips and bioinformatic tools to compare gene expression in non-infected and infected fly larvae. We focused on the early time point of nematode infection and therefore infected Drosophila larvae using H. bacteriophora harbouring GFP-labelled P. luminescens bacteria. Infected (GFP positive) larvae were collected 6 hours after infection.

2014-03-07 | E-MTAB-1542 | biostudies-arrayexpress

Microarray Analysis of Starvation Responses in Drosophila Larvae

Project description:Comparison of expression profiles

2012-03-21 | E-MEXP-3352 | biostudies-arrayexpress

Expression profile of the fat body from bigmax mutant and wildtype third instar Drosophila melanogaster larvae

Project description:To identify genes differentially expressed in the fatbody of Drosphila melanogaster bigmax mutants, a loss-of-function allele was generated by P-element mobilization. Mutant and wildtype first instar larvae were raised on two different sources of food, control and high-sugar media. When the animals reached the wandering third instar stage, animals were sacrificed and their fat bodies dissected. Total RNA was extracted, labeled fluorescently and hybridized competitively to Agilent's 4x44K Drosophila Gene Expression Microarrays. On each array, three different samples were analyzed: 1. wildtype animals raised on control food, 2. wildtype animals raised on high-sugar food and 3. bigmax mutant animals raised on high-sugar food.

2013-02-27 | E-MTAB-699 | biostudies-arrayexpress

Comparison of transcription profile of Adenosine receptor (AdoR) null mutant and adenosine transporter (ENT2) partial mutant in Drosophila melanogaster 3rd instar larvae

Project description:Dysregulation of adenosine (Ado) homeostasis has been observed in both rodent models and human patients of Huntington’s disease (HD). However, the underlying mechanisms of Ado signaling in HD pathogenesis is still unclear. In this study we examined influence of Ado signaling on Drosophila HD model. We further compared the transcription profiles of AdoR and ENT2 mutants by microarray analysis to identify a downstream target of AdoR signaling, which mediates the AdoR effects on HD pathology. Our findings have important implications for the crosstalk between Ado signaling and pathogenic effects of HD as well as other human diseases associated with polyglutamine aggregation.

2020-10-17 | E-MTAB-8699 | biostudies-arrayexpress

RNA-seq of Hml-SwitchGal4 induced pathway activation in Drosophila plasmatocytes

Project description:Drosophila carrying Hml-SwitchGal4 were crossed to different uas-constructs (uas-eGFP, uas-PGRP-LC, uas-hop, uas-tkvQD). 3rd instar larvae were either kept as control or SwitchGal4 was activated by hormone feeding for 24h. Afterwards plasmatocytes were extracted and subjected to RNA-seq.

2022-05-31 | E-MTAB-10764 | biostudies-arrayexpress

Gene regulation by the lysine demethylase KDM4A in Drosophila

Project description:Lysine methylation of histones is associated with both transcriptionally active chromatin and with silent chromatin, depending on what residue is modified. Histone methyltransferases and demethylases ensure that histone methylations are dynamic and can vary depending on cell cycle- or developmental stage. KDM4A demethylates H3K36me3, a modification enriched in the 3’end of active genes. The genomic targets and the role of KDM4 proteins in development remain largely unknown. To investigate the link between dKDM4A and transcription, and to unravel molecular targets on a genome-wide scale, we used microarrays to decipher gene expression changes in dKDM4A mutant 1st instar larvae and identified classes of up-regulated and down-regulated genes. Three replicates of 200 dKDM4A KG04636 / ∆dKDM4A and dKDM4A precise KG06436 / dKDM4A precise NP0618 Drosophila 1st instar larvae for RNA extraction and hybridization on Affymetrix microarrays.

2013-04-01 | E-GEOD-36903 | biostudies-arrayexpress

RNA-seq of Drosophila plasmatocyte mosaics which lack PRC2/H3K27me3

Project description:Genetic mosaics were induced in 3rd instar larvae by heatshock to generate H3K27R mutants, Su(z)12 mutants or E(z) mutants

2022-05-31 | E-MTAB-10762 | biostudies-arrayexpress

Gene expression profile of Drosophila third instar larval wing imaginal discs overexpressing netrinA (netA) and frazzled (fra).

Project description:In order to analyze the global changes in gene expression resulting from induction of NetA-Fra signaling, we carried out a microarray experiment comparing Drosophila third instar wing imaginal discs in which Net+Fra had been overexpressed to age matched wild type wing imaginal discs. RNA extracted from both +NetA-Fra overexpression and wildtype third instar imaginal discs were hybridized to the Affymetrix GeneChip Drosophila Genome 2.0 . Heat shock induced GFP-marked clones ectopically expressing NetA+Fra in larvae were generated. Controls for this study included age matched wildtype third instar wing imaginal discs bearing GFP clones which were prepared in the same manner. Total RNA was extracted from dissected +NetA-Fra vs. control third instar wing imaginal discs and hybridized to the Affymetrix GeneChip Drosophila Genome 2.0.

2013-05-21 | E-GEOD-47113 | biostudies-arrayexpress

HP1a, Su(var)3-9, SETDB1 and POF stimulate or repress gene expression depending on genomic position, gene length and expression pattern in Drosophila melanogaster

Project description:Heterochromatin protein 1a (HP1a) is a chromatin associated protein that has been well studied in many model organisms, such as Drosophila, where it is a determining factor for classical heterochromatin. HP1a is associated with the two histone methyltransferases SETDB1 and Su(var)3-9, which mediate H3K9 methylation marks and participate in the establishment and spreading of HP1a enriched chromatin. While HP1a is generally regarded as a factor that represses gene transcription, several reports have linked HP1a binding to active genes, and in some cases, it has been shown to stimulate transcriptional activity. To clarify the function of HP1a in transcription regulation and its association with Su(var)3-9, SETDB1 and the chromosome 4 specific protein POF, we conducted genome-wide expression studies and combined the results with available binding data in Drosophila melanogaster. The results suggested that HP1a has a repressing function on chromosome 4, where it preferentially targets non-ubiquitously expressed genes (NUEGs), and a stimulating function in pericentromeric regions. Further, we showed that the effects of SETDB1 and Su(var)3-9 are similar to HP1a, and on chromosome 4, Su(var)3-9, SETDB1 and HP1a target the same genes. In contrast, transposons are repressed by HP1a and Su(var)3-9 but are un-affected by SETDB1 and POF. In addition, we found that the binding level and expression effects of HP1a are affected by gene length. Our results indicate that genes have adapted to be properly expressed in their local chromatin environment. We prepared total RNA from 1st instar larvae trans-heterozygous for HP1a04/HP1a05, trans-heterozygous Su(var)3-9evo/Su(var)3-906, homozygous Setdb110.1/ Setdb110.1 mutants and trans-heterozygous HP1a04 PofD119/HP1a05 PofD119 double mutants three biological replicates, as well as from six biological replicates of wildtype control 1st instar larvae.

2013-04-05 | E-GEOD-43478 | biostudies-arrayexpress

Genome-wide maps of chromatin state in staged Drosophila embryos, ChIP-seq

Project description:This is a dataset generated by the Drosophila Regulatory Elements modENCODE Project led by Kevin P. White at the University of Chicago. It contains ChIP-seq data generated on Solexa Genome Analyzer for 6 Histone modifications (H3K9me3, H3K27me3, H3K4me3, H3K4me1, H3K27Ac, H3K9Ac), PolII and CBP/p300. Each factor has been studied for 12 different time-points of Drosophila development. Keywords: Epigenetics For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf For each combination of time-point and antibody, triplicate ChIP experiments have been performed and hybridized on Agilent 244K arrays. The hybridizations have been verified by sequencing one replicate of IP and one replicate of Input following Solexa sequencing procedure.

2009-05-12 | E-GEOD-16013 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data