GEO DataSets

(Submitter supplied) The rainbow trout, Oncorhynchus mykiss, has a male heterogametic XY genetic system, and this knowledge can be used to produce experimentally all male or all female genetic populations using males with new genotypes (XX and YY males). These monosex populations have been widely used for sex differentiation studies because they give the opportunity to work on undifferentiated gonads for which the natural fate as testis or ovary is known a priori. more...

Organism:

Oncorhynchus mykiss

Type:

Expression profiling by array

Platform:

GPL4860

40 Samples

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(Submitter supplied) Trout spermatogenesis proceeds seasonally in a way that all morphological and cellular events tend to be synchronized. We thus used gonads at key stages of the male reproductive cycle together with isolated germ cell populations to study the changes in gene expression underlying testis development. Statistical analysis followed by clustering of expression profiles allowed the discrimination of sequential events of gene activation or repression during testis development and/or throughout the germline.

Organism:

Oncorhynchus mykiss

Type:

Expression profiling by array

Platform:

GPL3650

38 Samples

Download data: QTF

(Submitter supplied) Abstract. The molecular pathways in embryonic vertebrates leading to gonad formation in each sex are incompletely understood. The purpose of this study was to identify novel genes that could be associated with sex-specific gonadal differentiation in a fish, the rainbow trout (Oncorhynchus mykiss). This study was facilitated by a custom microarray based on 7,681 genes derived from embryonic rainbow trout gonad cDNA libraries and public databases. more...

Organism:

Oncorhynchus mykiss

Type:

Expression profiling by array

Platform:

GPL11151

16 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

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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

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(Submitter supplied) Sex steroids play a key role in triggering sec differentiation in fish and the use of exogenous hormone treatment leads to partial or complete sex reversal. This phenomenon has attracted attention since the discovery taht even low environmental doses of exogenous steroids can adversely affect gonad morphology (ovotestis development) and induce reproductive failure. Modern genomic-based technologies have enhanced opportunities to find mechanisms of action (MOA) and dentify biomarkers for the toxic action of a compound. more...

Organism:

Oncorhynchus mykiss

Type:

Expression profiling by array

Platform:

GPL15840

30 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of rainbow trout liver cells comparing liver cells from small fish with liver cells from large fish at two time periods.

Organism:

Oncorhynchus mykiss; Salmo salar

Type:

Expression profiling by array

Platform:

GPL7303

8 Samples

Download data: GPR

(Submitter supplied) Transcriptional profiling of rainbow trout muscle cells comparing muscle cells from small fish with muscle cells from large fish at two time periods.

Organism:

Salmo salar; Oncorhynchus mykiss

Type:

Expression profiling by array

Platform:

GPL7303

8 Samples

Download data: GPR

(Submitter supplied) Animals and samplings: Research involving animal experimentation has been approved by the author's institution (authorization number 35-14) and conforms to NIH guidelines. All-male and all-female rainbow trout populations were obtained from the INRA experimental fish farm (Drennec, France) using breeders from the Mirwart strain. At 55 days post-fertilization (55 dpf, i.e., the onset of the free swimming), a male and female batch of 1500 fry each were transferred in 0.3 m3 tanks with recirculating water conditions. more...

Organism:

Oncorhynchus mykiss

Type:

Expression profiling by RT-PCR

Platform:

GPL1793

28 Samples

Download data

(Submitter supplied) The whole-body transcriptome of trout alevins was characterized to investigate the effects of long-term feeding of rainbow trout broodstock females a diet free of fishmeal (FM) and fish oil (FO) on the metabolic capacities of progeny. Effects were studied before first feeding and after 3 weeks of feeding with diets containing different proportions of marine and plant ingredients. We showed that that maternal diet history did not significantly affect expression of any gene before the first feeding. more...

Organism:

Oncorhynchus mykiss

Type:

Expression profiling by array

Platform:

GPL15840

64 Samples

Download data: TXT

(Submitter supplied) The dramatic increase in myotomal muscle mass in fish is related to their ability to lastingly produce new muscle fibres, a process termed hyperplasia. The molecular and cellular mechanisms underlying fish muscle hyperplasia largely remain unknown. In this study, we aimed to characterize intrinsic properties of myogenic cells originating from fish hyperplasic muscle. For this purpose, we compared in situ proliferation, in vitro cell behavior and transcriptomic profile of myogenic precursors originating from hyperplasic muscle of juvenile trout (JT) and from non-hyperplasic muscle of fasted juvenile trout (FJT) and adult trout (AT). more...

Organism:

Oncorhynchus mykiss

Type:

Expression profiling by array

Platform:

GPL24910

15 Samples

Download data: TXT

(Submitter supplied) Embryonic development rate is a key trait significantly associated and genetically linked with both growth rate and sexual maturity in rainbow trout. To identify candidate genes underlying embryonic development rate, whole genome expression microarray analyses were conducted using embryos from a fourth generation backcross family; each backcross generation involved the introgression of the fast-developing alleles for the major development rate QTL (from the Clearwater clonal line [CW]) into a slow-developing clonal line (Oregon State University [OSU]). more...

Organism:

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

Type:

Expression profiling by array

Platform:

GPL2716

24 Samples

Download data: TXT

(Submitter supplied) Sexual maturation causes loss of fish muscle mass and deterioration of fillet quality attributes that prevent market purpose. We recently showed that fillet yield and flesh quality are recovered in female trout after spawning. To gain insights into the molecular mechanisms regulating flesh quality recovery we conducted a time-course analysis of large-scale gene expression in trout muscle from spawning to 33 weeks post-spawning. more...

Organism:

Oncorhynchus mykiss

Type:

Expression profiling by array

Platform:

GPL15840

80 Samples

Download data: TXT, XLSX

(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) 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) 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

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