Expression profiling Hawaiian Drosophila species, tissues, and sexes
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ABSTRACT:
PROVIDER: PRJNA317989 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR3355190.fastq.gz | Fastqsanger.gz | |||
| SRR3355200.fastq.gz | Fastqsanger.gz | |||
| SRR3355210.fastq.gz | Fastqsanger.gz | |||
| SRR3355220.fastq.gz | Fastqsanger.gz | |||
| SRR3355230.fastq.gz | Fastqsanger.gz |
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Project description:This is a prepublication dataset that should change as updates are made to the underling genomes and annotations. Additional samples may be deposited and some samples may fail quality control. Please contact Haiwang Yang <haiwang.yang@nih.gov> for details. The RNA-seq data set contains the transcriptional profiling of eight sexed tissue types (head, thorax, carcass, abdomen w/o gonad, gonad, other reproductive tract, genitalia, and digestive system) and/or whole adult flies from five strains of Drosophila grimshawi, two strains of D. silvestris, and one strain each of D. hemipeza, D. heteroneura, and D. hawaiiensis. Samples were collected in duplicate to quadruplicate from sexually mature sexed adults (4-5 weeks post eclosion), which had been allowed to freely mate. Single-end stranded 76bp PolyA+ RNA-seq was performed on all samples. Libraries were multiplexed with indexed adaptors, and some were also prepared as mixed libraries with RNA from genetically distant species: Drosophila melanogaster (GSE81142) and Anopheles stephensi (GEO entry in preparation). All whole adult samples were prepared from single flies. Tissues were pooled from 3-5 individuals depending on the size of both the tissue and the species. For the G1 strain (reference assembly strain) of D. grimshawi, we profiled seven adult tissues for each sex in addition to whole flies. Samples were whole fly (one fly per sample), head (5 flies), thorax (5 flies), abdomen w/o gonad (5 flies), gonad (testes or ovaries) (5 flies), other reproductive tract (accessory gland and male reproductive duct or female spermatheca and oviduct; 10 flies per sample), genitalia (10 flies), and digestive system (proventriculus, crop, salivary gland, gut, and renal tubule; 5 flies). We prepared sexed single fly whole body samples in quadruplicate for ZA27Z2, ZA27Z3, and Mo010 strains of D. grimshawi. We also prepared sex-specific head, carcass, gonad, other reproductive tract with genitalia with duplicate for Wm1041 strain of D. grimshawi and other species - D. silvestris (Y11R6 and U26B9 strains), D. hemipeza (W40B14 strain), D. heteroneura (W48B6 strain), and D. hawaiiensis (Y17P5 strain). We used reduced number of flies for the non-grimshawi species (i.e., 3 heads, gonads or carcasses per sample, and 6 reproductive tracts plus genitalia per sample).
2016-06-01 | E-GEOD-80124 | biostudies-arrayexpress
Project description:This is a prepublication dataset that should change as updates are made to the underling genomes and annotations. Additional samples may be deposited and some samples may fail quality control. Please contact Haiwang Yang <haiwang.yang@nih.gov> for details. The RNA-seq data set contains the transcriptional profiling of eight sexed tissue types (head, thorax, carcass, abdomen w/o gonad, gonad, other reproductive tract, genitalia, and digestive system) and/or whole adult flies from five strains of Drosophila grimshawi, two strains of D. silvestris, and one strain each of D. hemipeza, D. heteroneura, and D. hawaiiensis.
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Project description:These data contain RNA-seq samples generated from the main chemosensory organs of closely related Drosophila species (D. melanogaster, D. sechellia, D. simulans, D. santomea, D. erecta, and D. suzukii) from larava (head) and adults (antenna, forelegs, proboscis with maxillary palps, ovipositors (female only) for both males and females. The purpose for generating these data was to carry out evolutionary analyses of gene expression differences between the six species.
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Project description:D. grimshawi microarray used to text for gene expression differences between two populations subjected to control or low-intensity heat for one week during maturation Anthropogenic influences on global processes and climatic conditions are increasingly affecting ecosystems throughout the world. Hawaii Island’s native ecosystems are well-studied and local long-term climatic trends well-documented, making these ecosystems ideal for evaluating how native taxa may respond to a warming environment. This study documents adaptive divergence of populations of a Hawaiian picture wing Drosophila, D. sproati, that are separated by only 7km and 365m in elevation. Representative laboratory populations show divergent behavioral and physiological responses to an experimental low-intensity increase in ambient temperature during maturation. The significant interaction of source population by temperature treatment for behavioral and physiological measurements indicates differential adaptation to temperature for the two populations. Significant differences in gene expression among males were mostly explained by the source population, with eleven genes in males also showing a significant interaction of source population by temperature treatment. The combined behavior, physiology, and gene expression differences between populations illustrates the potential for local adaptation to occur over a fine spatial scale and exemplifies nuanced response to climate change.
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