Zebrafish larvae response to AgNPs and AgNO3
Ontology highlight
ABSTRACT:
ORGANISM(S): Danio rerio
SUBMITTER: Sébastien Cambier
PROVIDER: E-GEOD-61186 | biostudies-arrayexpress |
REPOSITORIES: biostudies-arrayexpress
Similar Datasets
Project description:Custom D. magna gene expression microarray (Design ID: 023710, Agilent Technologies)were used to characterise gene expression profiles of Daphnia magna neoantes exposed to silver nanoparticles ( AgNPs ) or silver nitrate ( AgNO3 ) for 24 hours.
2016-04-01 | E-MTAB-4041 | biostudies-arrayexpress
Project description:Nanoparticles are compounds of emerging concern with largely unknown risks for human and ecological health. It is crucial to evaluate their potential biological impact to prevent unintended adverse effects on human health and the environment. We analyzed the transcriptional effects of polyvinylpyrrolidone-coated silver nanoparticles (PVP-AgNPs) and silver nitrate (AgNO3) on the fathead minnow (Pimephales promelas) to understand their potential toxicity and adverse outcomes. We also tested the feasibility of the fathead minnow as an alternative species to elucidate potential adverse effects on humans. Fathead minnow females were exposed to either 4 µg/L of AgNO3 or 70 µg/L of PVP-AgNPs for 96h. Microarray analyses were performed on liver and brain. Functional analysis identified potential toxicity pathways and molecular initiating events (MIEs) that were confirmed with functional assays. Data suggested that AgNO3 and PVP-AgNPs had both common and distinct transcriptional effects. The nanoparticles were linked to neurotoxicity and oxidative stress, and identified as a dopamine receptor antagonist. Silver nitrate was also identified as a potential neurotoxicant and was confirmed as adrenergic and cannabinoid receptors antagonist. While silver nitrate and PVP-AgNPs were both potential neurotoxicants, they appeared to act through different MIEs. Fathead minnow is a promising alternative species to elucidate potential adverse effects of relevance to human health. We analyzed the transcriptional effects of polyvinylpyrrolidone-coated silver nanoparticles (PVP-AgNPs) and silver nitrate (AgNO3) on the fathead minnow (Pimephales promelas) to understand their potential toxicity and adverse outcomes. FHM were obtained from Aquatic Biosystems (Fort Collins, CO), held in aerated dechlorinated tap water and fed three times daily with Zeigler® AquaTox Feed Gardners, PA, USA). Fathead minnow females were exposed to either 4 µg/L of AgNO3 or 70 µg/L of PVP-AgNPs (Luna Innovations, Blackburn, VA) for 96h at 24°C ± 1 with a 90% water change at 48 hours. Microarray analyses were performed on liver and brain.
2013-11-01 | E-GEOD-46520 | biostudies-arrayexpress
Project description:Transcriptional profiling of zebrafish larvae comparing control with AgNO3 or AgNPs exposed zebrafish larvae.
2015-09-01 | GSE61186 | GEO
Project description:Applications for silver nanomaterials in consumer products are rapidly expanding, creating an urgent need for toxicological examination of the exposure potential and ecological effects of silver nanoparticles (AgNPs). The integration of genomic techniques into environmental toxicology has presented new avenues to develop exposure biomarkers and investigate the mode of toxicity of novel chemicals. In the present study we used a 15k oligonucleotide microarray for Daphnia magna, a freshwater crustacean and common indicator species for toxicity, to differentiate between particle specific and ionic silver toxicity and to develop exposure biomarkers for citrate-coated and PVP-coated AgNPs. Gene expression profiles revealed that AgNO3 and AgNPs have distinct expression profiles suggesting different modes of toxicity. However, the gene expression profiles of the different coated AgNPs were similar revealing similarities in the cellular effects of these two particles. Major biological processes disrupted by the AgNPs include protein metabolism and signal transduction. In contrast, AgNO3 caused a downregulation of developmental processes, particularly in sensory development. Metal responsive and DNA damage repair genes were induced by the PVP AgNPs, but not the other treatments. In addition, two specific biomarkers were developed for the environmental detection of PVP AgNPs; although further verification under different environmental conditions is needed. We exposed Daphnia magna to the 1/10 LC50 and LC25 of citrate coated and PVP-coated Ag nanoparticles and Ag+ as AgNO3 for 24-h. For each exposure condition, we performed 6 replicate exposures with 5 individuals in each. All exposures were compared to a unexposed laboratory control.
2012-08-04 | E-GEOD-35150 | biostudies-arrayexpress
Project description:Applications for silver nanomaterials in consumer products are rapidly expanding, creating an urgent need for toxicological examination of the exposure potential and ecological effects of silver nanoparticles (AgNPs). The integration of genomic techniques into environmental toxicology has presented new avenues to develop exposure biomarkers and investigate the mode of toxicity of novel chemicals. In the present study we used a 15k oligonucleotide microarray for Daphnia magna, a freshwater crustacean and common indicator species for toxicity, to differentiate between particle specific and ionic silver toxicity and to develop exposure biomarkers for citrate-coated and PVP-coated AgNPs. Gene expression profiles revealed that AgNO3 and AgNPs have distinct expression profiles suggesting different modes of toxicity. However, the gene expression profiles of the different coated AgNPs were similar revealing similarities in the cellular effects of these two particles. Major biological processes disrupted by the AgNPs include protein metabolism and signal transduction. In contrast, AgNO3 caused a downregulation of developmental processes, particularly in sensory development. Metal responsive and DNA damage repair genes were induced by the PVP AgNPs, but not the other treatments. In addition, two specific biomarkers were developed for the environmental detection of PVP AgNPs; although further verification under different environmental conditions is needed.
2012-08-05 | GSE35150 | GEO
Project description:To investigate the patterns of global gene expression profiles modulated by the different sized AgNPs and to differentiate their modes of toxicity, zebrafish (Danio rerio) will be exposed to the AgNPs (50, and 150nm) and used for microarray analysis by Agilent Zebrafish Oligo Microarray system. 334 genes overlaped between AgNPs and Ag+ treatments in a total of 7,538 differential expressed genes. Immune response, antigen processing and presentation, response to estradiol stimulus and regulation of RNA metabolic process are most significant GO terms enriched in genes up regulated by four treatments. Neuroactive ligand-receptor interaction pathway was enriched among AgNP 50nm and AgNP 150nm activated genes, and specifically induced by AgNP 50nm include cell cycle and Toll-like receptor signaling pathways. The zebrafish larvae (72hpf) was exposed to AgNPs for 96hour. And then after total RNA extration from the each samples, the AgNPs related gene expression profiles identified using Agilent Zebrafish Oligo Microarray. Significant alterations in gene expression were found for all treatments and many of the gene pathways connected.
2016-07-03 | E-GEOD-50718 | biostudies-arrayexpress
Project description:Nanoparticles are compounds of emerging concern with largely unknown risks for human and ecological health. It is crucial to evaluate their potential biological impact to prevent unintended adverse effects on human health and the environment. We analyzed the transcriptional effects of polyvinylpyrrolidone-coated silver nanoparticles (PVP-AgNPs) and silver nitrate (AgNO3) on the fathead minnow (Pimephales promelas) to understand their potential toxicity and adverse outcomes. We also tested the feasibility of the fathead minnow as an alternative species to elucidate potential adverse effects on humans. Fathead minnow females were exposed to either 4 µg/L of AgNO3 or 70 µg/L of PVP-AgNPs for 96h. Microarray analyses were performed on liver and brain. Functional analysis identified potential toxicity pathways and molecular initiating events (MIEs) that were confirmed with functional assays. Data suggested that AgNO3 and PVP-AgNPs had both common and distinct transcriptional effects. The nanoparticles were linked to neurotoxicity and oxidative stress, and identified as a dopamine receptor antagonist. Silver nitrate was also identified as a potential neurotoxicant and was confirmed as adrenergic and cannabinoid receptors antagonist. While silver nitrate and PVP-AgNPs were both potential neurotoxicants, they appeared to act through different MIEs. Fathead minnow is a promising alternative species to elucidate potential adverse effects of relevance to human health.
2013-11-01 | GSE46520 | GEO
Project description:Cutis laxa (CL) syndromes are a heterogenous group of connective tissue disorders that share a loose, redundant skin as a common clinical feature. The systemic features vary among the different subtypes. CL is caused by mutations in genes encoding for components of the extracellular matrix (FBLN4, FBLN5, LTBP4 and ELN), encoding for elastin-modifying enzymes (ATP7A) or encoding for components that influence cellular trafficking and metabolism (ATP6V1E1, ATP6V1A, ATP6V0A2, ALDH18A1, RIN2, GORAB, PYCR1 and SLC2A10). ATP6V1E1–related CL cause loose redundant skin folds, variable mental disability, typical facial characteristics, lipodystrophy, hypotonia, and cardiopulmonary involvement including pneumothorax, hypertrophic cardiomyopathy and aortic root dilatation. The intent of this study is to investigate which genes are up- or downregulated in atp6v1e1b-deficient zebrafish larvae compared to wild-type controls. Via transcriptome analysis, we want to study the pathogenic mechanism of ATP6V1E1-induced CL syndrome. We use a zebrafish line with viral insertion in the 5’UTR of atp6v1e1b, disrupting transcription (atp6v1e1bhi577aTg/+), from the Zebrafish International Research Center (ZIRC) and we use a line harboring a two base-pair insertion followed by a three base-pair deletion in exon 5 of atp6v1e1b, c.334insGG; c.337-340delCGG, predicted to result in p.R111WfsX2 (atp6v1e1bcmg78/+) which we created ourselves by CRISPR-Cas9 mutagenesis. Overview of the experimental work-flow: - Sample collection: pool of 10 zebrafish larvae of 3 dpf/genotype in RNA-later - RNA extraction: TRIzol® Reagent,RNeasy mini kit (Qiagen) according to manufacturer’s instructions - RNA integrity: 2100 Bioanalyzer (Agilent) - Sequencing library: TruSeq® Stranded mRNA Library Prep (Illumina, San Diego, California, United States) supplemented with TruSeq® RNA Single Indexes Set A (Illumina) - Sequencing: HiSeq 3000 sequencer (Illumina) - paired-end 150 bp - sequencing facility of the Center of Medical Genetics Ghent - alignement to zebrafish GRCz10 reference genome to generate bam files - RNA-seq pipeline was used that was published by the nf-core community. This pipeline was executed using the Nextflow engine for computational workflows and comprises several processing steps. QC analysis of the RNA-seq data was performed with FastQC and MultiQC. TrimGalore was used to remove adapter contamination and to trim low-quality regions. Duplicate reads were identified with MarkDuplicates. Subsequently, all cleaned and trimmed reads that passed QC were aligned to GRCz10 using STAR aligner. Gene counts were computed using the featureCounts package. Differential expression analysis subsequently was performed on these gene counts using DESeq2. Differentially expressed genes were identified using a fold change cut-off >1 and FDR=0.05. Finally, GO enrichment & pathway analysis were performed on differentially expressed gene sets using the Generally Applicable Gene-set Enrichment for Pathway Analysis (GAGE) algorithm.
2021-01-29 | E-MTAB-8824 | biostudies-arrayexpress
Project description:ATF6 is a key regulator of the unfolded protein response. Through use of zebrafish and cultured cells we demonstrate that ATF6 drives fatty liver disease by interaction with fatty acid synthase (FASN). Total small RNA from livers of 5 dpf larval zebrafish were collected: 2 batches of Tg(fabp10:nls-mCherry) control larvae, 2 batches of ethanol-treated Tg(fabp10:nls-mCherry) larvae, and 1 batch of Tg(fabp10:nAtf6-cherry; cmlc2:GFP). Each batch was purified for preparation of high-throughput sequencing libraries.
2014-05-01 | E-GEOD-56498 | biostudies-arrayexpress