GEO DataSets

(Submitter supplied) Microarray technology provides a powerful tool for gene discovery studies, but the development of microarrays for individual species can be expensive and time-consuming. In this study, we test the suitability of a Danio rerio oligonucleotide microarray for application in a species with few genomic resources, the coral reef fish Pomacentrus moluccensis. Coral reef fishes are expected to experience rising sea surface temperatures due to climate change. more...

Organism:

Pomacentrus moluccensis; Danio rerio

Type:

Expression profiling by array; Genome variation profiling by array

Platform:

GPL3365

8 Samples

Download data: TIFF

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

Organism:

Orbicella faveolata

Type:

Expression profiling by array

Platform:

GPL6515

26 Samples

Download data: GPR

(Submitter supplied) The declining health of coral reefs worldwide is likely to intensify in response to continued anthropogenic disturbance from coastal development, pollution, and climate change. In response to these stresses, reef-building corals may exhibit bleaching, which marks the breakdown in symbiosis between coral and zooxanthellae. Mass coral bleaching due to elevated water temperature can devastate coral reefs on a large geographic scale. more...

Organism:

Orbicella faveolata

Type:

Expression profiling by array

Platform:

GPL6515

16 Samples

Download data: GPR

(Submitter supplied) The declining health of coral reefs worldwide is likely to intensify in response to continued anthropogenic disturbance from coastal development, pollution, and climate change. In response to these stresses, reef-building corals may exhibit bleaching, which marks the breakdown in symbiosis between coral and zooxanthellae. Mass coral bleaching due to elevated water temperature can devastate coral reefs on a large geographic scale. more...

Organism:

Orbicella faveolata

Type:

Expression profiling by array

Platform:

GPL6515

10 Samples

Download data: GPR

(Submitter supplied) Temperature is an important ecological condition, and sudden temperature changes in soil can induce stress in soil-dwelling invertebrates. Soil animals can move to more favorable habitats and/or adapt physiologically to a stressful environment. Hyperthermic conditions will impact gene expression as one of the first steps. We use a transcriptomics approach to identify the transcripts of which expression changed in response to heat stress in the springtail Folsomia candida using a 5,131 probe microarray. more...

Organism:

Folsomia candida

Type:

Expression profiling by array

Platform:

GPL6381

4 Samples

Download data: TXT

(Submitter supplied) Hybridization of one kidney of cortisol treated fish vs. one kidney of control fish. Kidneys were collected from untreated juvenile sea bream (n=4) and from fish, which received for 72h a coconut-oil implant containing 10mg/Kg (fish wet weight) (n=4) cortisol. Experiments were carried out at the University of the Algarve, Portugal in accordance with National legislation for the welfare of animals. Experiments were conducted in two 125 l cylindriconical tanks supplied with a continuous through-flow of oxygenated seawater at 20+1 °C using juvenile sea bream (25 g + 3 g) adapted for 1 week to the experimental conditions. One tank contained 8 untreated fish (control) and the other tank 8 cortisol treated fish and the end of experiments fish were removed form tanks, decapitated and the kidneys rapidly removed and place in RNAlater (Qiagen) at –20 °C. No mortality occurred in the control tank but 2 fish died in the cortisol treated tank. Keywords: other

Organism:

Sparus aurata

Type:

Expression profiling by array

Platform:

GPL1516

2 Samples

Download data

(Submitter supplied) Five different developmental stages, neurula (1), hatching (48 h post-fertilization) (2), pectoral fin budding (96 h post-fertilization) (4), mouth opening (144 h post-fertilization) (6), and eye pigmentation (168 h post-fertilization) (7) were compared directly to each other in all possible combinations (Loop design).All experiments were perfomed by dye swap hybridizations. Keywords: time-course

Organism:

Sparus aurata

Type:

Expression profiling by array

Platform:

GPL1516

20 Samples

Download data

(Submitter supplied) For the microarray production a cDNA library of mixed embryos/larvae of gilthead sea bream, Sparus aurata (Sarropoulou et al., in press) was used. A total of 10,176 clones were arrayed into 384 square well plates. In order to amplify the inserts culture PCR was performed as followed. The total volume of one PCR reaction was 50 µl, containing 43.5 µl reaction mix (2 µl 10x PCR Puffer, 0.04 µl 100 mM of each dATP, dCTP, dGTP and dTTP, 12.12 µl dH20), 1.5 µl of T7 and 1.5 µl of T3 primer (20 µM), 1 µl Taq polymerase (5U/µl) and 2.5 µl of culture. more...

Organism:

Sparus aurata

2 Series

22 Samples

Download data

(Submitter supplied) Arctic charr thrive at high densities and can live in freshwater year round, making this species especially suitable for inland, closed containment aquaculture. However, it is a cold water salmonid, which both limits where the species can be farmed and places wild populations at particular risk to climate change. Previously, we identified genes associated with tolerance and intolerance to acute, lethal temperature stress in Arctic charr. more...

Organism:

Salvelinus alpinus; Salmo salar

Type:

Expression profiling by array

Platform:

GPL10096

24 Samples

Download data: TXT

(Submitter supplied) Subspecies of the Atlantic killifish, Fundulus heteroclitus, differ in their maximum thermal tolerance. To determine whether there is a link between the heat shock response (HSR) and maximum thermal tolerance, we exposed 20ºC acclimated killifish from these subspecies to a 2hr heat shock at 34ºC and examined gene expression during heat shock and recovery using real time quantitative PCR and a heterologous cDNA microarray designed for salmonid fishes. more...

Organism:

Salmo salar; Fundulus heteroclitus; Coregonus clupeaformis; Oncorhynchus mykiss; Oncorhynchus tshawytscha; Osmerus mordax

Type:

Expression profiling by array

Platform:

GPL2716

16 Samples

Download data: MEV

(Submitter supplied) Transcriptional profiling of gene responses in liver in the coral reef fish Pomacentrus moluccensis in response to different types of environmental stress: cold, heat, hypoxic and hyposmotic shock. Goal was to determine the common effects of different types of environmental stress on gene expression as well as responses unique to different stressors. Abstract from Kassahn et al. BMC Genomics (2007) 8:358 Background While our understanding of the importance of transcriptional regulation for biological function is continuously growing, we still know comparatively little about how environmentally-induced stress affects gene expression in vertebrates and how consistent transcriptional stress responses are across different types of environmental stress. more...

Organism:

Danio rerio; Pomacentrus moluccensis

Type:

Expression profiling by array

Platform:

GPL3365

59 Samples

Download data: SPOT, TIFF

(Submitter supplied) The retention of a nucleus in the mature state of fish red blood cells (RBCs), and the ability to easily collect and manipulate blood in non-terminal experiments, makes it an ideal tissue on which to study the cellular stress response in fish. Through the use of the cGRASP 16K salmonid microarray, we are currently investigating differences in RBC global gene transcription in fish held under control conditions (12C) and exposed to heat stress (one hour at 25C followed by recovery at 12C). more...

Organism:

Oncorhynchus tshawytscha; Coregonus clupeaformis; Oncorhynchus mykiss; Salmo salar; Osmerus mordax

Type:

Expression profiling by array

Platform:

GPL2716

32 Samples

Download data: TXT

(Submitter supplied) Sexual reproduction is a complex process involving multiple pathways. In this study, we aimed at investigating gene expression profiles underlying gender specificity in the zebrafish. To do so, we analyzed the transcriptome of the gonads of breeding fish and queried the gene expression profiles for significant differences between the genders and also between stages of gonad development. Major differences in gene expression profiles between genders were encountered at the level of the gonads. more...

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL4375

11 Samples

Download data: TXT

(Submitter supplied) To understand the host transcriptional response to S. enterica serovar Choleraesuis (S. Choleraesuis), the first generation Affymetrix porcine GeneChip® was used to identify differentially expressed genes in the mesenteric lymph nodes responding to infection at acute (8 hours (h), 24h, 48h post-inoculation (pi)) and chronic stages (21 days (d) pi) The objectives of this study were to identify and examine the stereotypical gene expression response within the host mesenteric lymph nodes to S. more...

Organism:

Sus scrofa

Type:

Expression profiling by array

Platform:

GPL3533

15 Samples

Download data: CEL, EXP

(Submitter supplied) The temporal expression of the 23 CfMNPV genes representing all four temporal classes including its 7 unique genes were determined by a modified oligonucleotide-based two-channel DNA microarray. Transcription of the non-coding (antisense) strands of some of the CfMNPV select genes including the polyhedrin gene was also detected by the array analysis. The expression of four host genes varied several fold throughout virus infection. more...

Organism:

Choristoneura fumiferana; Choristoneura fumiferana multiple nucleopolyhedrovirus

Type:

Expression profiling by array

Platform:

GPL3719

14 Samples

Download data

(Submitter supplied) The euryhaline marine yeast Debaromyces hansenii is a model system for the study of genes related to osmotic stress. To study the transcriptional response of this organism to osmotic stress we have used the two color microarray based gene expression analysis of 6211 genes which constitutes the whole genome. Analysis was done at three time points after induction with salt (0.5h, 3h and 6h.) The mRNA level of 64 genes significantly increased at least 3-fold after induction with 2M NaCl whereas that of 45 genes was 3-fold diminished. more...

Organism:

Debaryomyces hansenii

Type:

Expression profiling by array

Platform:

GPL6287

6 Samples

Download data: TXT

(Submitter supplied) In this study, we performed microarray-based expression profiling on liver of zebrafish exposed to 60 mg/L (192?M) arsenic [As(V)] for 8-96 h, to identify global transcriptional programs and biological networks involved in arsenic-induced adaptive responses in vivo. We identified temporal differentially-expressed gene sets which we have grouped into early, late and all-time arsenic-responsive gene sets. more...

Organism:

Danio rerio

Type:

Expression profiling by array

Dataset:

GDS2249

Platform:

GPL2715

24 Samples

Download data

Analysis of livers of animals at various time points up to 96 hours following exposure to 15 ppm arsenic. Arsenic is an environmental toxicant and carcinogen. Results provide insight into the molecular mechanisms underlying the toxicity and carcinogenicity of arsenic.

Organism:

Danio rerio

Type:

Expression profiling by array, log2 ratio, 2 agent, 4 time sets

Platform:

GPL2715

Series:

GSE3048

24 Samples

Download data

(Submitter supplied) The alkylating agent N-methyl-N’-nitro-N-nitrosoguanidine (MNNG) induces cellular DNA damages and other comprehensive alterations that lead to chromosomal aberrations, mutations, tumor initiations, and cell death. However, the molecular mechanism of MNNG-induced cellular stress remains unclear.We have genome-wide analyzed early transcriptional responses of human FL amnion epithelial cells after exposure to three relatively low doses of MNNG (0.2, 1.0, and 10.0µM),and differential gene expression profiles were obtained 4 h after exposure using oligonucleotide microarrays followed by validation with quantitative real-time RT-PCR. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL96 GPL97

16 Samples

Download data: CEL, EXP

(Submitter supplied) In this research we present a transcriptomics analysis of the physiological response of a marine calcifier, Strongylocentrotus purpuratus, to ocean acidification, a decline in ocean pH that results from the absorption of anthropogenic carbon dioxide (CO2). Larvae were raised from fertilization to prism stage in seawater with elevated CO2 conditions based upon IPCC emissions scenario B1 (540ppm CO2) and A1FI (1020ppm CO2).

Organism:

Strongylocentrotus purpuratus

Type:

Expression profiling by array

Platform:

GPL7011

12 Samples

Download data: GPR