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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Microarray analysis of R7 and R8 targeting

ABSTRACT: The formation of neuronal connections requires the precise guidance of developing axons towards their targets. In the Drosophila visual system, photoreceptor neurons (R cells) project from the eye into the brain. These cells are grouped into some 750 clusters comprised of eight photoreceptors or R-cells each. R cells fall into three classes, R1-R6, R7 and R8. Posterior R8 cells are the first to project axons into the brain. How these axons select a specific pathway is not known. Here, we used a microarray-based approach to identify genes expressed in R7 and R8 neurons as they extend into the brain. We used microarray analysis to measure gene expression changes when the transcription factor Runt is misexpressed in eye discs and conversely when eye discs are rendered mutant for the Senseless transcription factor.

ORGANISM(S): Drosophila melanogaster

SUBMITTER: S Zipursky

PROVIDER: E-GEOD-26717 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Robo-3--mediated repulsive interactions guide R8 axons during Drosophila visual system development.

Pappu Kartik S KS Morey Marta M Nern Aljoscha A Spitzweck Bettina B Dickson Barry J BJ Zipursky S L SL

Proceedings of the National Academy of Sciences of the United States of America 20110413 18

The formation of neuronal connections requires the precise guidance of developing axons toward their targets. In the Drosophila visual system, photoreceptor neurons (R cells) project from the eye into the brain. These cells are grouped into some 750 clusters comprised of eight photoreceptors or R cells each. R cells fall into three classes: R1 to R6, R7, and R8. Posterior R8 cells are the first to project axons into the brain. How these axons select a specific pathway is not known. Here, we used ...[more]

PMID: 21490297

Similar Datasets

Microarray analysis of R7 and R8 targeting

Project description:The formation of neuronal connections requires the precise guidance of developing axons towards their targets. In the Drosophila visual system, photoreceptor neurons (R cells) project from the eye into the brain. These cells are grouped into some 750 clusters comprised of eight photoreceptors or R-cells each. R cells fall into three classes, R1-R6, R7 and R8. Posterior R8 cells are the first to project axons into the brain. How these axons select a specific pathway is not known. Here, we used a microarray-based approach to identify genes expressed in R7 and R8 neurons as they extend into the brain.

2011-01-20 | GSE26717 | GEO

R7-dependent transcription in the developing Drosophila retina

Project description:Color vision in Drosophila is mediated by photoreceptors R7 and R8, which express various combinations of opsins Rh3, Rh4, Rh5 and Rh6 depending on their cellular identity. Most ommatidia are classified as either “pale” or “yellow” subtypes with pale ommatidia coordinately expressing Rh3 and Rh5—in R7 and R8 cells respectively—while yellow express Rh4 and Rh6. Subtype identity is established initially in R7 photoreceptors via a stochastic mechanism then transmitted to the R8 via an inductive signal to ensure paired opsin expression. To identify factors that may be involved in this process, we used RNA-Seq to detect genes that are differentially expressed in sevenless mutant retinas at 40 hours after puparium formation. Since loss of sevenless prevents R7 recruitment and specification, we reasoned that this approach would allow us to identify genes that are enriched in R7 cells during this critical time point. Furthermore, since it has previously been established that in the absence of R7 most R8s will adopt the yellow Rh6-expressing identity, this gives us the opportunity to identify genes which may inductive mechanism occurring in R8 cells.

2023-12-07 | GSE220550 | GEO

Expression data from L3 Drosophila antennal-eyediscs

Project description:Growth of the drosophila eye imaginal discs is controlled by the activation of Notch in the dorsal-ventral boundary. Overexpression in the eye disc of the Notch ligand Delta together with lola and pipsqueak from the GS(2)88A8 line induces tumoral growth. We used microarray to analyze the expression profile of tumoral discs. Antennal-eye discs of Drosophila L3 larvae were selected for RNA extraction and hybridization on Affymetrix microarrayas. Two genetic conditions were analyzed: tumoral eye discs (ey-Gal4 GS(2)88A8 UAS-Dl) and control eye discs (GS(2)88A8 UAS-Dl). Three different biological replicates of each condition, each one consisting on 300 hundred pairs of eye discs, were analyzed.

2012-02-20 | E-GEOD-35471 | biostudies-arrayexpress

Abrupt scrib- vs. Abrupt and RasV12 (RasACT) scrib-, NotchICD (NACT) scrib- +/- JNK (Bsk) expression profiles

Project description:Drosophila mosaic eye-antennal discs from the listed genotypes generated using the MARCM system were dissected from 3rd instar larvae at day 5 after egg deposition. 20 pairs of discs for the Abrupt and scrib- + Abrupt samples and 50 pairs from FRT control, NACT scrib- +/- BskDN and RasACT scrib- +/- BskDN were used to prepare RNA. Samples were prepared in triplicate, and the RNA isolated using TRIZOL, before being column purified (Qiagen). Probes were hybridized to GeneChip Drosophila 2.0 Genome Arrays (Affymetrix). To compare the expression profile of Abrupt when overexpressed in the eye-antennal discs with tumours formed by Abrupt overexpression in scrib- clones, and to reveal JNK responsive genes in RasV12 (RasACT) scrib- versus NotchICD (NACT) scrib- eye-antennal mosaic discs

2013-08-15 | E-GEOD-42938 | biostudies-arrayexpress

Transcriptome of sevenless (sev) in the eye imaginal disc.

Project description:The Sevenless receptor (Sev) is a key component of the complex regulatory network involved in R7 photoreceptor determination. However the genetic program that responds to Sev is still unknown. Here, we explore the transcriptional profile downstream of Sev, using eye imaginal discs from third instar larvae of the sev mutants sevS11 and sevd2 compared with wild-type controls. Keywords: loss and gain of function analysis

2013-01-10 | GSE37793 | GEO

Drosophila melanogaster

Project description:Atonal and Senseless perturbations in Drosophila melanogaster eye-antennal imaginal discs.

| PRJNA117365 | ENA

Atonal and Senseless perturbations in Drosophila melanogaster eye-antennal imaginal discs.

Project description:The goal of this study is to identify co-expressed genes downstream of Atonal and Senseless. These gene lists are used as candidate target genes (technically: as foreground sets) in computational predictions of cis-regulatory elements using the cisTargetX method (http://med.kuleuven.be/cme-mg/lng/cisTargetX). Together, the gene expression results and cis-regulatory predictions, yield a gene regulatory network underlying the early events in retinal differentiation. Predicted cis-regulatory interactions have been validated extensively in vivo using enhancer reporter assays and genetic perturbations. Six samples were analyzed for Atonal gain-of-function (GOF) in the eye-antennal imaginal discs of third instar larvae of Drosophila melanogaster, namely three biological repeats for two different Gal4 drivers (Gal4/7 and AtoGal), crossed with UASato. Three samples were analyzed for Atonal loss-of-function (LOF) in the eye-antennal imaginal discs, namely three biological repeats of ato-/- larvae. Three samples were analyzed for Senseless GOF, namely three biological repeats of atoGal4 crossed with UASsens. Finally, eight control samples were analyzed, namely two biological repeats of four different lines (atoGal4, Gal4/7, UASato, and cantonS wild type).

2010-07-29 | E-GEOD-16713 | biostudies-arrayexpress

E-GEOD-26717

Project description:Transcription profiling by array of Drosophila eye discs expressing Runt, and eye discs mutant for Senseless

2015-09-16 | E-GEOD-26717 | ExpressionAtlas

Expression data from maturing soybean seeds

Project description:Environmental stresses such as drought, salinity and both high and low temperature are frequently faced by crops all over the world and can be considered major limiting factors for plant geographical distribution and productivity. Breeding has allowed creation of crops more adapted to some of the adverse environmental conditions and to overcome the geographical limitation without major consequences to productivity. However, due to the climate changes observed in the last few decades, some agricultural areas have experienced the âgreen seed problemâ characterized by chlorophyll retention in mature seeds. This is problematic in oil seed crops such as soybean and canola since it is related to lower seed and oil quality, resulting in serious financial losses. Besides the environmental factors, there are also genetic components controlling the susceptibility of different cultivars to green seed production. Understanding the molecular mechanisms controlling chlorophyll retention in seeds is crucial to allow advanced molecular breeding techniques and genetic engineering as a way to increase tolerance to this growing problem. We have used maturing soybean seeds of the cultivar MG/BR 46, harvested in R6, R7 and R8, produced under non-stressed and stressed environmental conditions, to understand he molecular basis of chlorophyll degradation and, consequently, its retention during soybean seed maturation. Soybean seeds were produced under stressed and non-stressed conditions and harvested in 3 different stages of maturation: R6 non-stressed, R7 non-stressed, R8 non-stressed, R6 stressed, R7 stressed, R8 stressed.

2016-01-21 | E-GEOD-70999 | biostudies-arrayexpress

Complementary Expression of Immunoglobulin Superfamily Ligands and Receptors in Synaptic Pairs in the Drosophila Visual System

Project description:Purpose: Information processing in the brain relies on precise patterns of synapses between neurons. The molecular mechanisms by which this specificity is achieved remains elusive. In the medulla of the Drosophila visual system, different neurons form synaptic connections in different layers. Methods: we developed methods to purify seven neuronal cell types (R7, R8 and L1-L5 neurons) using Fluorescence Activated Cell Sorting. Results: we show that neurons with different synaptic specificities express unique combinations of mRNAs encoding hundreds of cell surface and secreted proteins. Using RNA sequencing and MiMIC-based protein tagging, we demonstrate that 21 paralogs of the Dpr family, a subclass of Immunoglobulin (Ig)-domain containing proteins, are expressed in unique combinations in homologous neurons with different layer-specific synaptic connections. Dpr interacting proteins (DIPs), comprising nine paralogs of another subclass of Ig superfamily proteins, are expressed in a complementary layer-specific fashion in a subset of synaptic partners. We propose that pairs of Dpr/DIP paralogs contribute to layer-specific patterns of synaptic connectivity. Conclusions: This complexity is mirrored by the complexity of the cell surface and secreted molecules expressed by each of the R cell and lamina neurons profiled in this study. How this complexity contributes to specificity remains elusive, but the convergence of improved histological, genetic and molecular tools promises to provide important insights into the molecular recognition strategies controlling synaptic specificity. We chose 7 time points for RNA-seq analysis of R cells during pupal development corresponding to 24, 35, 40, 45, 53, 65 and 96 hrs after pupal formation (APF).

2015-12-17 | E-GEOD-68235 | biostudies-arrayexpress

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