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Genotype-by-diet interaction effects on transcriptome profiles in Drosophila melanogaster

ABSTRACT: This study was performed by testing 21 wildtype genetic lines on four different diets to look at the transcriptomic, metabolomic, and gross phenotype variation. The diets used were Normal Cornmeal-molasses symbolized N, high sugar symbolized 4, high fat F, and control C a low sugar diet. Larvae were raised from hatching to 3rd instar on the respecitve diets at a density of 50 larvae per food vial. Larvae were then collected for metabolomics, transcriptomic, and gross phenotype measurements (e.g. trehalose concentration, triglyceride concentration). Samples for transcriptomic and metabolomic analyses were snap frozen in liquid nitrogen.

ORGANISM(S): Drosophila melanogaster

PROVIDER: GSE50745 | GEO | 2013/09/19

SECONDARY ACCESSION(S): PRJNA219624

REPOSITORIES: GEO

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Genotype-by-diet interaction effects on transcriptome profiles in Drosophila melanogaster

Project description:This study was performed by testing 21 wildtype genetic lines on four different diets to look at the transcriptomic, metabolomic, and gross phenotype variation. The diets used were Normal Cornmeal-molasses symbolized N, high sugar symbolized 4, high fat F, and control C a low sugar diet. Larvae were raised from hatching to 3rd instar on the respecitve diets at a density of 50 larvae per food vial. Larvae were then collected for metabolomics, transcriptomic, and gross phenotype measurements (e.g. trehalose concentration, triglyceride concentration). Samples for transcriptomic and metabolomic analyses were snap frozen in liquid nitrogen. 236 total samples were analyzed. In most cases the are unique technical replicates except in the cases where the line, diet, and biological replicate characterists are identical.

2013-09-19 | E-GEOD-50745 | biostudies-arrayexpress

Transcription profiling of Drosophila adults to examine olfactory behavior

Project description:Transcriptional analysis for GEI in olfactory behavior Experiment Overall Design: Larvae were reared on three different media: standard cornmeal-molasses medium, standard medium supplemented with 9% ethanol and standard medium enriched with tomato paste. After eclosion, we transferred all flies to standard medium at 25C under a 12:12 hour light/dark cycle prior to characterization of behavioral responses to benzaldehyde and transcription profiling.

2008-10-20 | E-GEOD-10053 | biostudies-arrayexpress

Expression data from control and high sugar-fed third instar Drosophila larvae

Project description:Chronic high sugar feeding induces obesity, hyperglycemia, and insulin resistance in flies and mammals. To gain insight into the mechanisms underlying this response, we profiled gene expression in chronically high sugar fed, wandering (post-prandial) third instar wild type larvae (L3). These data were compared to control-fed larvae as well as those (mid-L3) actively feeding for twelve hours on both diets. We used microarrays to detail the response of Drosophila larvae to high sugar-induced insulin resistance. Male Canton-S third instar larvae were fed control (0.15M) or high (1M) sucrose and selected for RNA extraction and hybridization on Affymetrix microarrays. Wandering L3 were selected as those in the top half of the vial with partial blue guts to confirm that they had stopped eating the (blue) food. Mid-L3 were selected as L2, aged overnight until early L3, then transferred to fresh control or high sucrose food for 12 more hours before selection.

2011-06-21 | E-GEOD-30020 | biostudies-arrayexpress

dmyc overexpression 7h and 14h

Project description:Fly strains: All transgenes are P[+] in w strains. w+;+;Act 5c > CD2 > GAL4 UAS-GFP (Neufeld et al. 1998 ); y w hs-FLP122; +; UAS-dMyc (Zaffran et al. 1998 ). y w hs-FLP122; +; +. Adult flies and larvae were raised in regular fly food consisting of cornmeal and molasses at 25°C. Larvae overexpressing either UAS-regulated dMyc;GFP or GFP alone transgenes were generated using the Flp/Gal4 method (Struhl and Basler 1993 ; Pignoni and Zipursky 1997 ; Neufeld et al. 1998 ). Larvae were staged from hatching and raised at a density of 50 per vial at 25°C. Third instar larvae (110 h after egg deposition, AED) were heat shocked at 37°C for 2 h, and larvae were collected 7 h after heat shock (~120 h AED). Total RNA was isolated using TRIzol reagent (Invitrogen) as described by manufacturer followed by RNeasy (Qiagen) clear up. cRNA targets were generated using a standard amino-allyl labeling protocol, where 30 µg each of "experimental" (dMyc;GFP: hs-FLP122; Act-GAL4, UAS-GFP; UAS-dMyc) and "reference" (GFP only :ywhs-FLP122; Act-GAL4, UAS-GFP; +) total RNAs were coupled to either Cy3 or Cy5 fluorophores. Paired labeled targets were processed on microarrays using protocols described elsewhere (Fazzio et al. 2001 ). Posthybridized arrays were scanned using a GenePix 4000 scanner (Axon Instruments). Data were generated from five independent replicates (two with one dye orientation and three with the reversed dye orientation) at 7h and 14h Keywords: repeat sample

2004-12-16 | GSE2073 | GEO

dmyc overexpression 7h and 14h

Project description:Fly strains: All transgenes are P[+] in w strains. w+;+;Act 5c > CD2 > GAL4 UAS-GFP (Neufeld et al. 1998 ); y w hs-FLP122; +; UAS-dMyc (Zaffran et al. 1998 ). y w hs-FLP122; +; +. Adult flies and larvae were raised in regular fly food consisting of cornmeal and molasses at 25Â°C. Larvae overexpressing either UAS-regulated dMyc;GFP or GFP alone transgenes were generated using the Flp/Gal4 method (Struhl and Basler 1993 ; Pignoni and Zipursky 1997 ; Neufeld et al. 1998 ). Larvae were staged from hatching and raised at a density of 50 per vial at 25Â°C. Third instar larvae (110 h after egg deposition, AED) were heat shocked at 37Â°C for 2 h, and larvae were collected 7 h after heat shock (~120 h AED). Total RNA was isolated using TRIzol reagent (Invitrogen) as described by manufacturer followed by RNeasy (Qiagen) clear up. cRNA targets were generated using a standard amino-allyl labeling protocol, where 30 Âµg each of "experimental" (dMyc;GFP: hs-FLP122; Act-GAL4, UAS-GFP; UAS-dMyc) and "reference" (GFP only :ywhs-FLP122; Act-GAL4, UAS-GFP; +) total RNAs were coupled to either Cy3 or Cy5 fluorophores. Paired labeled targets were processed on microarrays using protocols described elsewhere (Fazzio et al. 2001 ). Posthybridized arrays were scanned using a GenePix 4000 scanner (Axon Instruments). Data were generated from five independent replicates (two with one dye orientation and three with the reversed dye orientation) at 7h and 14h

2010-05-27 | E-GEOD-2073 | biostudies-arrayexpress

Expression data from control and high sugar-fed third instar Drosophila larvae

2011-06-21 | GSE30020 | GEO

TRANSCRIPTIONAL RESPONSES OF ECOLOGICALLY DIVERSE DROSOPHILA SPECIES TO LARVAL DIETS DIFFERING IN RELATIVE SUGAR AND PROTEIN RATIOS

Project description:We utilized three ecologically diverse Drosophila species to explore the influence of ecological adaptation on transcriptomic responses to isocaloric diets differing in their relative proportions of protein to sugar. Drosophila melanogaster, a cosmopolitan species that breeds in decaying fruit, exemplifies individuals long exposed to a Western diet higher in sugar, while the natural diet of the cactophilic D. mojavensis, is much lower in carbohydrates. Drosophila arizonae, the sister species of D. mojavensis, is largely cactophilic, but also utilizes rotting fruits that are higher in sugars than cacti. We exposed third instar larvae for 24 hours to diets either (1) high in protein relative to sugar, (2) diets with equal amounts of protein and sugar, and (3) diets low in protein but high in sugar. As we predicted, based upon earlier interspecific studies of development and metabolism, the most extreme differences in gene expression under different dietary conditions were found in D. mojavensis followed by D. arizonae. No differential expression among diets was observed for D. melanogaster, a species that survives well under all three conditions, with little impact on its metabolism. We suggest that these three species together provide a model to examine individual and population differences in vulnerability to lifestyle-associated health problems such as metabolic syndrome and diabetes.

2017-07-20 | GSE101664 | GEO

mRNA sequence of Drosophila melanogaster heads to evaluate the neurological effects of larval diet on adults

Project description:Drosophila melanogaster larvae reared on isocaloric diets with different protein/sugar ratios, exhibit different developmental times and the eclosed adults show different metabolite pools of glycogen and triglycerides (Matzkin et al., 2011, PMID: 21525254). To investigate the effect of larval diet on adult neurological processes at the gene expression level we performed high throughout RNA sequencing of fly heads reared in two different protein/sugar ratio diets.

2017-06-03 | GSE82245 | GEO

mRNA profiling of Apis mellifera larvae fed with diets containing quercetin

Project description:To determine the impact of quercetin on honeybee development and physiology, we conducted an RNASeq analysis of gene expression in neonate larvae exposed for three days to control “bee candy” diet (comprising sucrose and sugar syrup) or diets to which 0.1 mM or 0.25 mM quercetin was added.

2017-01-20 | GSE83437 | GEO

Genetical toxicogenomics of lead treatment

Project description:75 Diosophilia Roo lines, recominant inbred lines, were raised to adulthood either on conventional diet or diet supplemented with lead acetate. Whole flies were used for RNA extraction. RNA was run on Dros Genome 2 arrays. Each line also genotyped for 88 markers Control food consisted of standard cornmeal, agar, sugar, yeast, and 250 microM NaAc (Ashburner 1989). Lead-contaminated food consisted of standard food plus 250 microM PbAc (lead exposure at this concentration has been shown to affect locomotion in adults (Hirsch et al. 2003)). Keywords: genetical genomic

2009-06-01 | GSE11695 | GEO

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