Ontology highlight
ABSTRACT:
PROVIDER: PRJNA529759 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR8802100.fastq.gz | Fastqsanger.gz | |||
| SRR8802101.fastq.gz | Fastqsanger.gz | |||
| SRR8802102.fastq.gz | Fastqsanger.gz | |||
| SRR8802095.fastq.gz | Fastqsanger.gz | |||
| SRR8802096.fastq.gz | Fastqsanger.gz |
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Project description:Exposure to bisphenol A (BPA), an endocrine disruptor (ED), has raised concerns for both human and ecosystem health. Epigenetic factors, including microRNAs, are key regulators of gene expression during cancer. The effect of BPA exposure on the zebrafish epigenome remains poorly characterized. Zebrafish represents an excellent model to study cancer as the organism develops disease that resembles human cancer. Using zebrafish as systems toxicology model, we hypothesized that chronic BPA-exposure impacts the miRNome in adult zebrafish and establishes an epigenome more susceptible to cancer development. After a 3 week exposure to 100 nM BPA, RNA from the liver was extracted to perform high throughput mRNA and miRNA sequencing. Differential expression (DE) analyses comparing BPA-exposed to control specimens were performed using established bioinformatics pipelines. In the BPA-exposed liver, 6,188 mRNAs and 15 miRNAs were differently expressed (q ≤ 0.1). By analyzing human orthologs of the DE zebrafish genes, signatures associated with non-alcoholic fatty liver disease (NAFLD), oxidative phosphorylation, mitochondrial dysfunction and cell cycle were uncovered. Chronic exposure to BPA has a significant impact on the liver miRNome in adult zebrafish and has the potential to cause adverse outcomes including cancer.
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Project description:Tire wear particles (TWP) are small micro- or nano-particles resulting from the friction of tire tread against roads. These microplastics have been found in waterways, usually through rain and wind, posing a potential risk to exposed aquatic life. The goal of this project was to assess the toxicity of chemical leachates from TWP and characterize how they may impact the health and development of aquatic life, like Danio rerio, zebrafish. Furthermore, we also determined if solar-simulated or dark conditions intensified the effects of TWP, considering processes like photodegradation and photochemical oxidation occur in sunlight. Zebrafish were exposed from 0-4 days post fertilization (dpf) to a filtered TWP solution at varying concentrations, and each concentration was leached in either solar-simulated or dark conditions. Mortality and hatching rates were quantified throughout the exposures, and physical anomalies were recorded at 4 dpf using microscopy. Ethyoxyresorufin-O-deethylase (EROD) activity, an indicator of Phase I biotransformation, was performed using fluorescent microscopt. RNA sequencing was performed for 4 dpf larvae. TWP exposures, regardless of leaching light status, increased mortality, yolk sac edema, pericardial edema, spinal curvature, and craniofacial malformations, while decreasing hatching and swim bladder inflation. Regardless of lighting during leaching, EROD activity increased in the liver and brain and decreased in the gut CYP1A. RNA sequencing revealed some conserved processes in response to TWP, regardless of light status during leaching, including those involved in neurobiological function. However, divergent responses were also observed for processes such as amino acid metabolism, steroid biosynthesis, and fatty acid metabolism. Overall, these results suggest a disruption of embryonic development in zebrafish when exposed to TWP, and that sunlight during chemical leaching can alter the molecular responses to TWP.
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Project description:Using a pooled (n=10) zebrafish liver DNA, we generated base-resolution DNA methylation maps to document epigenetic landscape in zebrafish genome. Here we generated single-nucleotide resoultion DNA methylation map of zebrafish pooled liver sample using Reduced Representation Bisulfite Sequencing (RRBS)
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Project description:Microplastics represent a growing environmental concern for the oceans due to their potential capability to adsorb different classes of pollutants, thus representing a still unexplored source of exposure for aquatic organisms. In this study polystyrene (PS) microplastics were characterized for their capability to adsorb pyrene (PYR) as model compound for polycyclic aromatic hydrocarbons, and transfer this chemical to filter feeding mussels Mytilus galloprovincialis. Gene expression analyses of Mytilus galloprovincialis exposed to polystyrene (PS) microplastics and to polystyrene contaminated with pyrene (PS-PYR) have been performed trough a DNA microarray platform.
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Project description:Exposure to bisphenol A (BPA), an endocrine disruptor (ED), has raised concerns for both human and ecosystem health. Epigenetic factors, including microRNAs, are key regulators of gene expression during cancer. The effect of BPA exposure on the zebrafish epigenome remains poorly characterized. Zebrafish represents an excellent model to study cancer as the organism develops disease that resembles human cancer. Using zebrafish as systems toxicology model, we hypothesized that chronic BPA-exposure impacts the miRNome in adult zebrafish and establishes an epigenome more susceptible to cancer development. After a 21 day exposure to 100 nM BPA, RNA from the liver was extracted to perform high throughput mRNA and miRNA sequencing. Differential expression (DE) analyses comparing BPA-exposed to control specimens were performed using established bioinformatics pipelines. In the BPA-exposed liver, 6,188 mRNAs and 15 miRNAs were differently expressed (q ≤ 0.1). By analyzing human orthologs of the DE zebrafish genes signatures associated with non-alcoholic fatty liver disease (NAFLD), oxidative phosphorylation, mitochondrial dysfunction and cell cycle were uncovered. Chronic exposure to BPA has a significant impact on the liver miRNome in adult zebrafish and has the potential to cause adverse outcomes including cancer.
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