GEO DataSets

(Submitter supplied) Traditional toxicity testing has been unable to keep pace with the introduction of new chemicals into commerce. Consequently, there are limited or no toxicity data upon which to base a risk assessment for many chemicals to which fish and wildlife may be exposed. Per- and polyfluoroalkyl substances (PFAS) are emblematic of this issue in that most the ecological hazards of most PFAS remain uncharacterized. more...

Organism:

Pimephales promelas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33861

888 Samples

Download data: CSV, TXT

(Submitter supplied) It is postulated that below a transcriptomic-based point of departure, adverse effects are unlikely to occur, thereby providing a chemical concentration to use in screening level hazard assessment. The present study extends previous work describing a high throughput fathead minnow assay that can provide full transcriptomic data after exposure to a test chemical. One day post-hatch fathead minnows were exposed to ten concentrations of three representatives of four chemical modes of action: organophosphates, ecdysone receptor agonists, plant photosystem II inhibitors, and estrogen receptor agonists for 24 hours. more...

Organism:

Pimephales promelas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30333

932 Samples

Download data: TXT

(Submitter supplied) The use of aqueous film-forming foams (AFFF) at fire-training areas (FTAs) has introduced into ground- and surface waters a complex mixture of per- and poly-fluorinated alkyl substances (PFAS). The toxicity of environmental PFAS mixtures to wildlife is not well understood and presents a knowledge gap that limits accurate risk assessment. To evaluate reproductive biomarker responses to complex environmental PFAS mixtures, we conducted a series of on-site experiments using flow-through mobile laboratories exposing fish to groundwater impacted by a legacy FTA and an adjacent reference site A 60K fathead minnow microarray was used to quantify gene expression patterns in the testis and liver of fish exposed to water from Fire Training Area 1 and 2 relative to a reference site.

Organism:

Pimephales promelas

Type:

Expression profiling by array

Platform:

GPL15775

31 Samples

Download data: TXT

(Submitter supplied) The use of aqueous film-forming foams (AFFF) at fire-training areas (FTAs) has introduced into ground- and surface waters a complex mixture of per- and poly-fluorinated alkyl substances (PFAS). The toxicity of environmental PFAS mixtures to wildlife is not well understood and presents a knowledge gap that limits accurate risk assessment. To evaluate reproductive biomarker responses to complex environmental PFAS mixtures, we conducted a series of on-site experiments using flow-through mobile laboratories exposing fish to groundwater impacted by a legacy FTA and an adjacent reference site A 60K fathead minnow microarray was used to quantify gene expression patterns in the testis and liver of fish exposed to water from Fire Training Area 1 and 2 relative to a reference site.

Organism:

Pimephales promelas

Type:

Expression profiling by array

Platform:

GPL15775

22 Samples

Download data: TXT

(Submitter supplied) RNA-seq expression assays were done in larval Pimephales promelas (Fathead minnow, FHM) exposed to either the pyrethroid pesticide Bifenthrin or copper sulfate. Normalized gene expression profiles were used to identify genes differentially expressed between control samples and treated samples, and five machine learning methods were employed to predict the exposure status of the samples in a nested cross-validation framework in a binary manner with each treatment chemical. more...

Organism:

Pimephales promelas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25572

32 Samples

Download data: TXT

(Submitter supplied) As part of the EcoToxChip project, 49 distinct exposure studies were conducted on three lab model species (Japanese quail, fathead minnow, African clawed frog) and three ecologically relevant species (double crested cormorant, rainbow trout, northern leopard frog), at multiple life stages (embryo, adult), exposed to eight chemicals of environmental concern (ethinyl estradiol-EE2, hexabromocyclododecane-HBCD, lead-Pb, selenomethionine-SeMe, 17β trenbolone-TB, chlorpyrifos-CPF, fluoxetine-FLX, and benzo [a] pyrene-BaP. more...

Organism:

Phalacrocorax auritus; Pimephales promelas; Oncorhynchus mykiss; Xenopus laevis; Coturnix japonica; Lithobates pipiens

Type:

Expression profiling by high throughput sequencing

9 related Platforms

724 Samples

Download data: TXT

(Submitter supplied) Metformin, along with its biotransformation product guanylurea, are commonly observed in municipal wastewaters and subsequent surface waters. Previous studies in fish have identified metformin as a potential endocrine active compound but there are inconsistencies in the literature with regard to effects. To further investigate the potential reproductive toxicity of metformin and guanylurea to fish, a series of experiments were performed with reproductively mature fathead minnows (Pimephales promelas). more...

Organism:

Pimephales promelas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25572

191 Samples

Download data: TXT

(Submitter supplied) RNA-seq expression assays were done in larval Pimephales promelas (Fathead minnow, FHM) exposed to 10 chemicals (3 metals, 4 Neonicotinoids, and 3 pharmaceuticals) over a range of concentrations to derive relatively short term transcriptomics based points of departure (tPODs). tPODs were compared to apical points of departures (aPODs) to investigate the potential use of the FHM tPODS as part of a high throughput approach that might be used in a regulatory context.

Organism:

Pimephales promelas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25572

878 Samples

Download data: TXT

(Submitter supplied) Given that larval fish stages provide opportunities for development of stressor-selective screening level tests, this work aimed to investigate the optimal age of fathead minnow larva and duration of exposure for the pharmaceutical, propranolol, found in the environment. Differentially expressed genes were studied as well as gene set enrichment analysis.

Organism:

Pimephales promelas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25572

270 Samples

Download data: TXT

(Submitter supplied) Hexabromocyclododecane (HBCD) is a brominated flame retardant that presents a threat to aquatic organisms as it can be maternally transferred and has been reported to hinder development and survival in early-life stage (ELS) fish. However, little is known to date regarding the molecular mechanisms that drive the toxicity of HBCD. This study examined the apical and molecular response patterns of maternally transferred HBCD in fathead minnow (Pimephales promelas) larvae at seven (whole transcriptome) and 14 (apical and physiological) days post-fertilization. more...

Organism:

Pimephales promelas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30333

15 Samples

Download data: CSV, TXT

(Submitter supplied) We investigated the impacts of wastewater effluent exposure on gene expression in adult fathead minnows, a freshwater fish commonly used as an ecotoxicological model.

Organism:

Pimephales promelas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30333

64 Samples

Download data: TSV

(Submitter supplied) Fluoxetine (FLX) is the most common selective serotonin reuptake inhibitor pharmaceutical used for the treatment of psychological disorders such as depression and anxiety. Increased prescription use of FLX by human populations has led to its pseudo-persistence in effluent-receiving waterways. Despite emerging concerns of FLX becoming a potential threat to the aquatic environment, there is currently limited information on effects of FLX on aquatic wildlife, including its specific mechanism of action and associated toxicity pathways in fish. more...

Organism:

Pimephales promelas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30333

30 Samples

Download data: CSV

(Submitter supplied) Current methods to support chemical hazard assessment face significant challenges given the rapidly growing number of compounds of emerging concern (CEC) requiring assessment. Standard testing strategies rely upon live animal testing, which are time-consuming, expensive, and ethically questionable. These concerns serve as an impetus to develop new approach methodologies (NAMs) that do not rely on live animal tests. more...

Organism:

Pimephales promelas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30333

26 Samples

Download data: CSV, TXT

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

Organism:

Pimephales promelas

Type:

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

Platform:

GPL25572

159 Samples

Download data

(Submitter supplied) This work aimed to expand the panel of gene expression-based biomarkers to include estrogens, to identify training strategies that maximize the range of applicable concentrations, and to evaluate the potential for mRNA and two classes of small non-coding RNAs (sncRNAs), microRNA (miRNA) and piwi-interacting RNA (piRNA), as biomarkers.

Organism:

Pimephales promelas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25572

139 Samples

Download data: TXT

(Submitter supplied) This work aimed to expand the panel of gene expression-based biomarkers to include estrogens, to identify training strategies that maximize the range of applicable concentrations, and to evaluate the potential for two classes of small non-coding RNAs (sncRNAs), microRNA (miRNA) and piwi-interacting RNA (piRNA), as biomarkers.

Organism:

Pimephales promelas

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL25572

20 Samples

Download data: TXT

(Submitter supplied) The goal of this study is to characterize molecular toxicity pathways associated with ethinylestradiol-induced toxicity and link these molecular perturbations to apical outcomes of regulatory relevance.

Organism:

Pimephales promelas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25572

15 Samples

Download data: CSV, TXT

(Submitter supplied) Characterization of the renal transcriptomic response to Yersinia ruckeri/Conseuqences of early life stage thyroid suppression on long-term immune function and the immune response in the fathead minnow (Pimephales promelas)

Organism:

Pimephales promelas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28204

16 Samples

Download data: FASTA, XLSX

(Submitter supplied) Abstract: The Army is replacing traditional munitions with insensitive munitions (IM) resistant to accidental detonation. Although the parent IM compound nitroguanidine (NQ) is generally not acutely toxic at concentrations >1000 mg/L in aquatic exposures, products formed by intensive UV-degradation resulted in of multiple-order of magnitude increase in toxicity. A methylated congener of NQ, 1-methyl-3-nitroguanidine (MeNQ), is also being assessed for potential use in IM explosive formulations and consequently was here investigated for UV-degradation hazard and bioaccumulation potential. more...

Organism:

Pimephales promelas

Type:

Expression profiling by array

Platform:

GPL17098

40 Samples

Download data: TXT

(Submitter supplied) Contaminants of Emerging Concern (CECs) can be measured in waters across the United States, including the tributaries of the Great Lakes. The extent to which these contaminants affect gene expression in aquatic wildlife is unclear. This dataset presents the full hepatic transcriptomes of laboratory reared fathead minnows (Pimephales promelas) caged at multiple sites within the Milwaukee Estuary area of concern and control sites. more...

Organism:

Pimephales promelas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25572

116 Samples

Download data: TXT