GEO DataSets

(Submitter supplied) BACKGROUND: Fast, efficiently growing animals have increased protein synthesis and/or reduced protein degradation relative to slow, inefficiently growing animals. Consequently, minimizing the energetic cost of protein turnover is a strategic goal for enhancing animal growth. Characterization of gene expression profiles associated with protein turnover would allow us to identify genes that could potentially be used as molecular biomarkers to select for germplasm with improved protein accretion. more...

Organism:

Oncorhynchus mykiss; Salmo salar

Type:

Expression profiling by array

Platform:

GPL3976

4 Samples

Download data: CSV

(Submitter supplied) Metabolic processes and sexual maturation closely interact during the long-distance reproductive migration of many fish species to their spawning grounds. In the present study, we have for the first time used exercise experimentally to investigate the effects on sexual maturation in rainbow trout. Pubertal autumn-spawning seawater-raised female rainbow trout Oncorhynchus mykiss (n=26; 50-cm, 1.5-kg) were rested or swum at a near optimal speed of 0.75 body-lengths per second in a 6,000 L swim-flume under natural reproductive conditions (16 °C fresh-water, starvation, 8h-light:16h-dark photoperiod). more...

Organism:

Oncorhynchus mykiss

Type:

Expression profiling by array

Platform:

GPL6154

2 Samples

Download data

(Submitter supplied) We used microarray analyses in adult female zebrafish (Danio rerio) to identify metabolic pathways regulated by starvation in two key organs that 1) serve biosynthetic and energy mobilizing functions (liver) and 2) consume energy and direct behavioral responses (brain). Starvation affected the expression of 574 transcripts in the liver, indicating an overall decrease in metabolic activity, reduced lipid metabolism, protein biosynthesis and proteolysis, and cellular respiration, and increased gluconeogenesis. more...

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

18 Samples

Download data: CEL

(Submitter supplied) Purpose: mRNA-Seq to reveal the differentially expression pattern of genes in innate/adaptive immune relevant pathways, and combining to the previous DNA microarray analysis to address the immunomodulatory effects of cecropin P1 transgene in rainbow trout. Methods: Total RNA were isolated from three tissues, spleen, liver and kidney, from two individuals of two families of transgenic and one family of non-transgenic fish. more...

Organism:

Oncorhynchus mykiss

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19277

6 Samples

Download data: FA, XLSX

(Submitter supplied) Nylon microarrays displaying 9152 rainbow trout cDNAs were hybridized using RNA samples originating from ovarian tissue collected during late vitellogenesis, post-vitellogenesis and oocyte maturation. Differentially expressed genes were identified using a statistical analysis. A supervised clustering analysis was performed using only differentially expressed genes in order to identify gene clusters exhibiting similar expression profiles. more...

Organism:

Oncorhynchus mykiss

Type:

Expression profiling by array

Dataset:

GDS3163

Platform:

GPL3650

13 Samples

Download data

Analysis of fish preovulatory ovaries collected during late vitellogenesis, post-vitellogenesis and oocyte maturation. In fish, the post-vitellogenic period is critical for completion of the oogenetic process. Results provide insight into molecular events occurring during the preovulatory period.

Organism:

Oncorhynchus mykiss

Type:

Expression profiling by array, transformed count, 3 development stage sets

Platform:

GPL3650

Series:

GSE4871

13 Samples

Download data

(Submitter supplied) In the context of replacing fish meal and fish oil in feeds for aquaculture, rainbow trout alevins received from first-feeding onwards, one of the three experimental diets: V (100% plant-based), C (mix of FM-FO & plant ingredients) or M (100% FM-FO based). The long term effects of such dietary replacement on the intestinal (mid gut) and hepatic transcriptome were studied in juveniles after a 7-month feeding trial at 7°C.

Organism:

Oncorhynchus mykiss

Type:

Expression profiling by array

Platform:

GPL15840

48 Samples

Download data: TXT

(Submitter supplied) Whirling disease, caused by the pathogen Myxobolus cerebralis, afflicts several salmonid species. Rainbow trout are particularly susceptible and suffer high mortality rates. The disease is persistent and spreading in hatcheries and natural waters of several countries, including the U.S., and the economic losses associated with whirling disease have been extremely large. In this study, gene expression profiling was conducted for resistant and susceptible rainbow trout strains following pathogen exposure with the primary objective of identifying specific genes associated with whirling disease resistance. more...

Organism:

Salmo salar; Oncorhynchus mykiss

Type:

Expression profiling by array

Platform:

GPL2899

8 Samples

Download data

(Submitter supplied) Sustainable aquaculture, which entails proportional replacement of fish-based feed sources by plant-based ingredients, is impeded by the poor growth response frequently seen in fish fed high levels of plant ingredients. To evaluate the potential to improve, by means of early nutritional exposure, the growth of fish fed plant-based feed, rainbow trout swim-up fry were fed for 3 weeks either a plant-based diet (diet V, V-fish) or a diet containing fishmeal and fish oil as protein and fat source (diet M, M-fish). more...

Organism:

Oncorhynchus mykiss

Type:

Expression profiling by array

Platform:

GPL19030

23 Samples

Download data: TXT

(Submitter supplied) Hepatocellular carcinoma (HCC) is one of the most common malignant tumors worldwide and its occurrence is associated with a number of environmental factors including ingestion of the dietary contaminant aflatoxin B1 (AFB1). While etiology of the disease is relatively well defined, the molecular mechanisms of tumorigenesis are poorly understood. In this study, we examined, for the first time, gene expression of AFB1-induced HCC by microarray in the rainbow trout (Oncorhynchus mykiss) tumor model. more...

Organism:

Oncorhynchus mykiss

Type:

Expression profiling by array

Platform:

GPL2096

12 Samples

Download data

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

Organism:

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

Type:

Expression profiling by array

Platform:

GPL2716

44 Samples

Download data: TXT

(Submitter supplied) Domestication has produced faster-growing strains of animals for use in agriculture, but selection has been applied with little knowledge of the underlying genetic changes that arose throughout the process. Mammals and birds have been domesticated for thousands of years whereas fish have been domesticated only recently; therefore, wild progenitor strains remain for comparison. Rainbow trout (Oncorhynchus mykiss) have undergone intensive selection and domesticated strains grow more rapidly than extant wild strains. more...

Organism:

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

Type:

Expression profiling by array

Platform:

GPL2716

12 Samples

Download data: TXT

(Submitter supplied) Domestication has produced faster-growing strains of animals for use in agriculture, but selection has been applied with little knowledge of the underlying genetic changes that arose throughout the process. Mammals and birds have been domesticated for thousands of years whereas fish have been domesticated only recently; therefore, wild progenitor strains remain for comparison. Rainbow trout (Oncorhynchus mykiss) have undergone intensive selection and domesticated strains grow more rapidly than extant wild strains. more...

Organism:

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

Type:

Expression profiling by array

Platform:

GPL2716

14 Samples

Download data: TXT

(Submitter supplied) Domestication has produced faster-growing strains of animals for use in agriculture, but selection has been applied with little knowledge of the underlying genetic changes that arose throughout the process. Mammals and birds have been domesticated for thousands of years whereas fish have been domesticated only recently; therefore, wild progenitor strains remain for comparison. Rainbow trout (Oncorhynchus mykiss) have undergone intensive selection and domesticated strains grow more rapidly than extant wild strains. more...

Organism:

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

Type:

Expression profiling by array

Platform:

GPL2716

18 Samples

Download data: TXT

(Submitter supplied) Atrazine (ATZ) and nonylphenol (NP) are commonly identified contaminants in aquatic habitats; however, relatively few studies have considered the impact of these endocrine disrupters on immune function. This study examined the immunotoxicological effects of ATZ and NP at multiple levels of biological organization. Juvenile rainbow trout (Oncorhynchus mykiss) were exposed to a solvent control (0.00625 % v/v anhydrous ethanol), 59 µg/L ATZ, 555 µg/L ATZ, 2.3 µg/L NP or 18 µg/L NP (measured concentrations) for 4 d. more...

Organism:

Oncorhynchus mykiss; Salmo salar

Type:

Expression profiling by array

Platform:

GPL8904

24 Samples

Download data: TXT

(Submitter supplied) A rapid decline in temperature poses a major challenge for poikilothermic fish. The gene expression of rainbow trout Oncorhynchus mykiss having undergone such a cold shock (0 °C) and a control (5 °C) were compared in a microarray-based study.

Organism:

Salmo salar; Oncorhynchus mykiss

Type:

Expression profiling by array

Platform:

GPL21057

24 Samples

Download data: TXT, XLSX

(Submitter supplied) Although studies have established that exogenous growth hormone (GH) treatment stimulates growth in fish, its effects on target tissue gene expression are not well characterized. We assessed the effects Posilac® (Monsanto Co., St. Louis, MO), a recombinant bovine somatotropin, on tissue transcript levels. Transcript abundance was measure in liver and muscle using the GRASP 16 K cDNA microarray. A selection of the genes identified as altered with the microarray, and also transcripts for insulin-like growth factors, growth hormone receptors (GHR) and myostatins were measured by realtime PCR in the liver, muscle, brain, kidney, intestine, stomach, gill and heart. more...

Organism:

Oncorhynchus mykiss; Salmo salar

Type:

Expression profiling by array

Platform:

GPL3976

16 Samples

Download data: TXT

(Submitter supplied) Comparison of gene expression of exposed versus non-exposed Oncorhynchus mykiss hepatocytes to four model chemicals and a synthetic mixture. Hepatocytes were exposed for 24 hours to a single chemical and a synthetic mixture of 10 nM 17 alpha-ethinylestradiol (EE2), 0.75 nM 2,3,7,8-tetrachloro-di-benzodioxin (TCDD), 100 μM paraquat and 0.75 μM 4-nitroquinoline-1-oxide (NQO). Keywords: Exposed vs. control

Organism:

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

Type:

Expression profiling by array

Platform:

GPL2716

40 Samples

Download data: TXT

(Submitter supplied) The Infectious Hematopoietic Necrosic Virus (IHNV) DNA vaccine is based on the viral glycoprotein gene (G gene) and induces a non-specific anti-viral immune response and long-term specific immunity against IHNV in salmonid fishes. This study characterized gene expression responses associated with the early anti-viral response. Homozygous rainbow trout were injected intra-muscularly (I.M.) with vector DNA or the IHNV DNA vaccine. more...

Organism:

Oncorhynchus mykiss; Salmo salar

Type:

Expression profiling by array

Platform:

GPL2899

10 Samples

Download data: TXT

(Submitter supplied) Retene is an aryl hydrocarbon receptor (AhR) activating PAH that causes dioxin-like developmental toxicity in fish embryos. The cardiovascular tissues seem to be the target tissues. To explore the effect of retene exposure on the hearts of developing rainbow trout embryos, a microarray study was conducted. The results serve as a basis for developing further hypothesis in the search for the candidate genes behind the physiological changes. more...

Organism:

Oncorhynchus mykiss

Type:

Expression profiling by array

Platform:

GPL15607

24 Samples

Download data: TXT