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Omics score: 0

Pimephales promelas isolate:UF

ABSTRACT: Tissue-based mapping of the fathead minnow (Pimephales promelas) transcriptome and proteome

PROVIDER: PRJNA479767 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR7474970_subreads.fastq.gz	Fastqsanger.gz
	SRR7474980_subreads.fastq.gz	Fastqsanger.gz
	SRR7474971_1.fastq.gz	Fastqsanger.gz
	SRR7474971_2.fastq.gz	Fastqsanger.gz
	SRR7474981_subreads.fastq.gz	Fastqsanger.gz

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Tissue-based mapping of the fathead minnow (Pimephales promelas) transcriptome and proteome

Project description:Omics approaches are broadly used to explore endocrine and toxicity-related pathways and functions. Nevertheless, there is still a significant gap in knowledge in terms of understanding the endocrine system and its numerous connections and intricate feedback loops, especially in non-model organisms. The fathead minnow (Pimephales promelas) is a widely used small fish model for aquatic toxicology and regulatory testing, particularly in North America. A draft genome has been published but the amount of available genomic or transcriptomic information is still far behind that of other more broadly studied species, such as the zebrafish. Here, we surveyed the tissue-specific proteome and transcriptome profiles in adult male fathead minnow. To do so, we generated a draft transcriptome using short and long sequencing reads. We also performed RNA sequencing and proteomics analysis on the telencephalon, hypothalamus, liver, and gut of male fish. The main purpose of this analysis was to generate tissue-specific omics data in order to support future aquatic ecotoxicogenomic and endocrine-related studies as well as to improve our understanding of the fathead minnow as an ecological model.

2018-10-15 | PXD010216 | Pride

Advancing the fathead minnow (Pimephales promelas) as a model for immunotoxicity testing/Consequences of early life stage thyroid suppression on long term immune function in the fathead minnow (Pimephales promelas)

Project description: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)

2020-05-19 | GSE146105 | GEO

Tissue-based mapping of the fathead minnow (Pimephales promelas) transcriptome and proteome

Project description:Tissue-based mapping of the fathead minnow (Pimephales promelas) transcriptome and proteome

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Project description:Natural Variation in Fish Transcriptomes: Comparative Analysis of the Fathead Minnow (Pimephales promelas)

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Project description:Influence of Gross Ovarian Stage on Transcript Profiles in Fathead Minnow (Pimephales promelas) Ovary Tissue

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Project description:Transcriptional signature of progesterone-induced germinal vesicle breakdown in the fathead minnow ovary (Pimephales promelas)

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Project description:Influence of Water Chemistry on Toxicogenomics of Chronic Lead Toxicity to the Fathead Minnow (Pimephales promelas)

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Investigations of gene expression in fathead minnow (Pimephales promelas) brain tissue reveal toxicological impacts of RDX exposure

Project description:Production, usage and disposal of the munitions constituent (MC) cyclotrimethylenetrinitramine (RDX) has led to environmental releases on military facilities. The chemical attributes of RDX are conducive for leaching to surface water which may put aquatic organisms at risk of exposure. Because RDX has been observed to cause aberrant neuromuscular effects across a wide range of animal phyla, we assessed the effects of RDX on central nervous system (CNS) function in the representative aquatic ecotoxicological model species, fathead minnow (Pimephales promelas). A brain-tissue based cDNA library enriched for transcripts differentially expressed in response to RDX exposure was developed for fathead minnow and was transitioned to custom cDNA-based microarrays. All 4,128 cDNAs were sequenced, quality filtered and assembled yielding 3,018 unique sequences and 945 significant blastx matches (E ≤ 10-5). Bioassays were conducted exposing fathead minnows to RDX at 0.625, 1.25, 2.5, 5, 10 mg/L or an acetone-spike control for 10d. Overt toxicity of RDX in fathead minnow occurred only at the highest exposure concentration resulting in 50% mortality. Conversely, Bayesian analysis of microarray data indicated significant changes in transcript expression in fathead minnow brain tissue at RDX concentrations as low as 0.625 mg/L. In total, 154 microarray targets representing 44 unique transcript identities were differentially expressed in RDX exposures, the majority of which were validated by RT-qPCR. Investigation of molecular pathways, gene ontology and individual gene functions indicated that RDX exposures affected metabolic processes involved in: oxygen transport, neurological function, calcium binding / signaling, energy metabolism, cell cycle / cell proliferation, oxidative stress and ubiquitination. In total, our study indicated that RDX exposure affected molecular processes critical to CNS function in fathead minnow.

2010-07-30 | GSE21153 | GEO

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Project description:Investigations of gene expression in fathead minnow (Pimephales promelas) brain tissue reveal toxicological impacts of RDX exposure

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Project description:Effect of surface waters from Eglin Air Force Base on gene expression in fathead minnow (Pimephales promelas)

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