GEO DataSets

(Submitter supplied) Gene expression variation results from numerous sources including genetic, environmental, life stage, and even the environment experienced by previous generations. While the importance of each has been demonstrated in diverse organisms, their relative contributions remain understudied because few investigations have simultaneously determined each within a single experiment. Here we quantified genome-wide gene expression traits in Drosophila, quantified the contribution of multiple different sources of trait variation and determined the molecular mechanisms underlying observed variation. more...

Organism:

Drosophila sechellia; Drosophila simulans; Drosophila simulans x Drosophila sechellia

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL35057 GPL35058 GPL35056

72 Samples

Download data: XLSX

(Submitter supplied) To explore how brains change upon species evolution, we generated the first whole central brain comparative single-cell transcriptomic atlases of three closely-related but ecologically-distinct drosophilids: D. melanogaster, D. simulans and D. sechellia. D. melanogaster and D. simulans are cosmopolitan generalists, while the island endemic D. sechellia exhibits extreme niche specialism on the ripe noni fruit of the Morinda citrifolia shrub. more...

Organism:

Drosophila sechellia; Drosophila simulans; Drosophila melanogaster

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL27544 GPL21306 GPL24063

24 Samples

Download data: MTX, TSV

(Submitter supplied) Drosophila sechellia is an island endemic host specialist that has evolved to consume the toxic fruit of Morinda citrifolia, also known as noni fruit. Recent studies by our group and others have examined genome-wide gene expression responses of fruit flies to individual highly abundant compounds found in noni responsible for the fruit’s unique chemistry and toxicity. In order to relate these reductionist experiments to the gene expression responses to feeding on noni fruit itself, we fed rotten noni fruit to adult female D. more...

Organism:

Drosophila sechellia

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24063

6 Samples

Download data: CSV

(Submitter supplied) The Dox meiotic drive system distorts the sex-ratio in Drosophila simulans. Here, the authors reconstruct the step-wise emergence, and recent amplification of Dox superfamily genes in parallel with the emergence of autosomal hairpin RNA-class siRNA loci that target subsets of these putative drivers

Organism:

Drosophila sechellia; Drosophila simulans; Drosophila mauritiana

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL22292 GPL25637 GPL22293

11 Samples

Download data: BW

(Submitter supplied) We analyze the gene expression response to hexanoic acid in Drosophila simulans, Drosophila melanogaster, and Drosophila sechellia

Organism:

Drosophila sechellia; Drosophila simulans; Drosophila melanogaster

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL24063 GPL27544 GPL21306

18 Samples

Download data: TXT

(Submitter supplied) During embryogenesis in animals, initial developmental processes are driven entirely by maternally provided gene products that are deposited into the oocyte. The zygotic genome is transcriptionally activated later, when developmental control is handed off from maternal gene products to the zygote during the maternal to zygotic transition (MZT). The MZT is highly regulated and conserved across all animals, and while some details change across model systems where it has been studied, most are too evolutionarily diverged to make comparisons as to how this process evolves. more...

Organism:

Drosophila sechellia x Drosophila mauritiana; Drosophila simulans x Drosophila mauritiana; Drosophila mauritiana x Drosophila sechellia; Drosophila sechellia; Drosophila mauritiana; Drosophila simulans; Drosophila simulans x Drosophila sechellia; Drosophila mauritiana x Drosophila simulans

Type:

Expression profiling by high throughput sequencing

8 related Platforms

63 Samples

Download data: TXT

(Submitter supplied) The dietary specialist fruit fly Drosophila sechellia evolved to feed primarily on the toxic fruit of Morinda citrifolia. Seeking the basis of adaptations to the unique chemistry of its host plant, we profiled genome-wide gene expression response to L-DOPA because it is highly abundant in M. citrifolia, critical for reproductive success of D. sechellia, and may influence toxin resistance in this species. more...

Organism:

Drosophila sechellia; Drosophila simulans; Drosophila melanogaster

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL21306 GPL27544 GPL24063

18 Samples

Download data: TXT

(Submitter supplied) The underlying genetic basis of adaptive phenotypic changes are generally poorly understood, yet a growing number of case studies are beginning to shed light on important questions about the molecular nature and pleiotropy of such changes. We use Drosophila sechellia, a dietary specialist fruit fly that has evolved to specialize on a single toxic host plant: Morinda citrifolia, as a model for adaptive phenotypic change and seek to determine the genetic basis of traits associated with host specialization in this species. more...

Organism:

Drosophila sechellia

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24063

6 Samples

Download data: TXT

(Submitter supplied) The earliest stage of animal development is controlled by maternally deposited mRNA transcripts and proteins. Once the zygote is able to transcribe its own genome, maternal transcripts are degraded, in a tightly regulated process known as the maternal to zygotic transition (MZT). While this process has been well-studied within model species, we have little knowledge of how the pools of maternal and zygotic transcripts evolve. more...

Organism:

Drosophila mauritiana; Drosophila mojavensis; Drosophila pseudoobscura; Drosophila willistoni; Drosophila persimilis; Drosophila santomea; Drosophila melanogaster; Drosophila yakuba; Drosophila ananassae; Drosophila erecta; Drosophila miranda; Drosophila sechellia; Drosophila simulans; Drosophila virilis

Type:

Expression profiling by high throughput sequencing; Third-party reanalysis

14 related Platforms

119 Samples

Download data: TXT

(Submitter supplied) MicroRNAs (miRNAs) are a class of small, endogenous RNAs that regulate mRNA expressions post-transcriptionally. To study their expression, we collected and sequenced small RNA libraries in Drosophila species. To survey their regulation divergence, we dissected testes from miR-983 mutant and control flies in two sibling species and performed an RNA-seq analysis.

Organism:

Drosophila simulans; Drosophila erecta; Drosophila melanogaster; Drosophila sechellia

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

4 related Platforms

10 Samples

Download data: FA, XLSX

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Drosophila sechellia; Drosophila simulans; Drosophila yakuba; Drosophila ananassae; Drosophila erecta; Drosophila mojavensis; Drosophila virilis; Drosophila willistoni; Drosophila persimilis; Homo sapiens; Drosophila melanogaster; Drosophila pseudoobscura

Type:

Genome binding/occupancy profiling by high throughput sequencing

15 related Platforms

175 Samples

Download data: BW

(Submitter supplied) Transcriptional enhancers function as docking platforms for combinations of transcription factors to control gene expression. How enhancer sequences determine nucleosome occupancy, transcription factor recruitment, and transcriptional activation in vivo remains unclear. Using ATAC-seq across a panel of Drosophila inbred strains we found that SNPs affecting Grainyhead binding sites causally determine the accessibility of epithelial enhancers. more...

Organism:

Drosophila persimilis; Drosophila erecta; Drosophila mojavensis; Drosophila virilis; Drosophila willistoni; Drosophila ananassae; Drosophila sechellia; Drosophila simulans; Drosophila melanogaster; Drosophila pseudoobscura; Drosophila yakuba

Type:

Genome binding/occupancy profiling by high throughput sequencing

12 related Platforms

24 Samples

Download data: BW

(Submitter supplied) Transcriptional profiling of 3 day old virgin male and female adults comparing control male Drosophila melanogaster (MDM) versus male D sechellia (MDS) and comparing control female Drosophila melanogaster (FDM) versus female D sechellia (FDS). Goal was to determine why D sechellia is tolerant to octanoïc acid, the major toxic compound of Morinda citrifolia fruit

Organism:

Drosophila melanogaster; Drosophila sechellia

Type:

Expression profiling by array

Platform:

GPL6385

8 Samples

Download data: TXT

(Submitter supplied) Annotation of small RNAs from 11 Drosophila species for the purpose of non-coding RNA annotation and comparative genomics assessment.

Organism:

Drosophila grimshawi; Drosophila sechellia; Drosophila simulans; Drosophila yakuba; Drosophila ananassae; Drosophila erecta; Drosophila virilis; Drosophila mojavensis; Drosophila persimilis; Drosophila willistoni; Drosophila pseudoobscura

Type:

Non-coding RNA profiling by high throughput sequencing

22 related Platforms

56 Samples

Download data: TXT

(Submitter supplied) The dietary specialist fruit fly Drosophila sechellia has evolved to specialize on the toxic fruit of its host plant Morinda citrifolia. Toxicity of Morinda fruit is primarily due to high levels of octanoic acid (OA). Using RNA interference (RNAi), prior work found that knockdown of Osiris family genes Osiris 6 (Osi6), Osi7, and Osi8 led to increased susceptibility to OA in adult D. melanogaster flies, likely representing genes underlying a Quantitative Trait Locus (QTL) for OA resistance in D. more...

Organism:

Drosophila sechellia

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24063

6 Samples

Download data: TXT

(Submitter supplied) The goal of this study was to identify the preponderance of developmental hotspots in the Drosophila olfactory system. Using RNASeq-derived transcriptome profiles of the developing and adult antennae for six different Drosophila species, we show that a few highly variable transcription factors may drive, likely in a combinatorial fashion, high variability in a few select olfactory receptor neuron (ORN) developmental lineages (i.e. more...

Organism:

Drosophila sechellia; Drosophila ananassae; Drosophila erecta; Drosophila simulans; Drosophila virilis

Type:

Expression profiling by high throughput sequencing

5 related Platforms

40 Samples

Download data: CSV

(Submitter supplied) Drosophila sechellia relies exclusively on the fruits of Morinda citrifolia, which are toxic to most insects, including its sibling species D. melanogaster and D. simulans. Although several odorant binding protein (Obp) genes and olfactory receptor (Or) genes were suggested to be associated with the D. sechellia host shift, a broad view of how chemosensory genes have contributed to this shift is still lacking. more...

Organism:

Drosophila sechellia

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20000

6 Samples

Download data: FPKM_TRACKING

(Submitter supplied) Drosophila sechellia relies exclusively on the fruits of Morinda citrifolia, which are toxic to most insects, including its sibling species D. melanogaster and D. simulans. Although several odorant binding protein (Obp) genes and olfactory receptor (Or) genes were suggested to be associated with the D. sechellia host shift, a broad view of how chemosensory genes have contributed to this shift is still lacking. more...

Organism:

Drosophila sechellia

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20000

6 Samples

Download data: FPKM_TRACKING

(Submitter supplied) We applied microfluidic multiplex PCR and deep sequencing (mmPCR-seq) to quantify RNA editing levels at targeted sites in Drosophila melanogaster, Drosophila sechellia and the species-specific alleles of their F1 hybrids to understand the contribution of cis and trans regulatory factors to regulating RNA editing levels.

Organism:

Drosophila sechellia; Drosophila melanogaster x Drosophila sechellia; Drosophila melanogaster

Type:

Other

5 related Platforms

12 Samples

Download data: TXT

(Submitter supplied) Curration of small RNAs from four melanogaster-subgroup species (Drosophila simulans, Drosophila sechellia, Drosophila erecta, and Drosophila yakuba) for the purpose of non-coding RNA annotation and comparative genomics assessment.

Organism:

Drosophila yakuba; Drosophila erecta; Drosophila sechellia; Drosophila simulans

Type:

Non-coding RNA profiling by high throughput sequencing

4 related Platforms

4 Samples

Download data: TXT