Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

51 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Toxicogenomic Responses to Inorganic and Organic Mercury in Caenorhabditis elegans

ABSTRACT: Humans are exposed to both inorganic and organic mercury. While the toxicity of mercury is well established, much remains to be resolved about how different mercurials act at the molecular level. To address this issue, we employed a toxicogenomics approach using the nematode C. elegans. Using sub-, low- or high-toxic exposures of either HgCl2 or CH3HgCl the effects of these mercurials on steady-state mRNA levels for the entire genome were determined. A total of 473 and 2,865 genes were differentially expressed in the HgCl2 and CH3HgCl treatments, respectively. Hierarchical clustering, principal components and pattern analyses indicated that the transcriptional responses of the mercurials were unique. Mixed-stage C. elegans populations were exposed to 0, 2, 7.5 or 20 uM HgCl2 or 0, 0.75, 2, 7.5 uM CH3HgCl for 24 hours. Three independent experiments were performed for each treatment condition.

ORGANISM(S): Caenorhabditis elegans

SUBMITTER: NIEHS Microarray Core

PROVIDER: E-GEOD-28915 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Mercury toxicity in barley roots

Project description:The effects of mercury (HgCl2) on barley (Hordeum vulgare L.) growth, physiological traits and gene expression profiles were studied. The shoot to root ratio was decreased in the two levels of HgCl2 (500 and 1000 ?M) assayed, which was related primarily with decreases in shoot dry weight. Moreover stomatal conductance was limited and leaf carbon isotope discrimination decreased. Therefore water uptake limitations seem to be an important component of barley responses to HgCl2. Evidences for decreased stomatal conductance and water uptake limitations were further confirmed by the over expression of ABA related transcripts and down regulation of an aquaporin in roots. Root dry weight was only affected at 1000 ?M HgCl2 and root browning was observed, while several transcripts for lignin biosynthesis were up regulated in HgCl2. Microarray analysis further revealed that growth inhibition in HgCl2 was related to increased expression of genes participating in ethylene biosynthesis and down regulation of several genes participating in DNA synthesis, chromatin structure and cell division, cell wall degradation and modification, oxidative pentose phosphate cycle and nitrogen metabolism pathway. Genes involved in detoxification and defence mechanisms were up regulated including several cytochrome P450s, glucosyltransferases and glutathione-s-transferases and amino acid metabolism participatory genes. It is concluded that barley plants survive in the presence of HgCl2 through several mechanisms that include water uptake limitations, shoot and root growth regulation, increased expression of genes involved in the biosynthesis of several plant protection secondary metabolites and finally through detoxification. Six samples were analysed including 3 biological replicates of mercury exposed roots and 3 controls (no mercury added to the growing solution)

2009-05-13 | E-GEOD-15295 | biostudies-arrayexpress

Transcriptomic analysis in Caenorhabditis elegans exposed to organic and inorganic forms of arsenic or mercury

Project description:Arsenic and mercury are known chemical hazards. The differences in effects from organic and inorganic forms of these toxic elements is less well understood, however. The nematode Caenorhabditis elegans (C. elegans) is a suitable model to investigate the toxicity of environmental hazards. In this study, the transcriptomic profiles of C. elegans exposed to inorganic mercury chloride (HgCl2) and sodium (meta)arsenite (NaAsO2) were assessed alongside organic methylmercury chloride (meHgCl) and dimethylarsinic acid (DMA). For this purpose, adult C. elegans were exposed for 24 h to NaAsO2 (10 µg/ml), DMA (200 µg/ml), HgCl2 (2 µg/ml), and meHgCl (0.5 µg/ml), concentrations that were equitoxic in juveniles for developmental delay. Whole genome gene expression profiles were determined by using Cellegans_UnrestrictedGE_G2519F_020186 Microarray (Agilent Technologies, Santa Clara, CA). The results showed significant changes in the transcriptome of adult C. elegans exposed to NaAsO2, DMA, HgCl2, or meHgCl relative to the control group (C. elegans treated with water). A total of 927 and 1221 differentially expressed genes (DEGs) were found in C. elegans treated with 10 µg/ml NaAsO2 or 200 µg/ml DMA, respectively. Interestingly, only 161 DEGs were in common for these two chemicals. Exposure to 2 µg/ml HgCl2 or 0.5 µg/ml meHgCl altered the expression of 670 and 485 genes, respectively, and out of these genes, 154 were commonly altered by the two treatments. Analysis of DEGs revealed that organic and inorganic forms of arsenic and mercury have different effects on the transcriptome of adult C. elegans.

2022-02-18 | GSE196891 | GEO

Toxicogenomic Responses to Inorganic and Organic Mercury in Caenorhabditis elegans

Project description:Humans are exposed to both inorganic and organic mercury. While the toxicity of mercury is well established, much remains to be resolved about how different mercurials act at the molecular level. To address this issue, we employed a toxicogenomics approach using the nematode C. elegans. Using sub-, low- or high-toxic exposures of either HgCl2 or CH3HgCl the effects of these mercurials on steady-state mRNA levels for the entire genome were determined. A total of 473 and 2,865 genes were differentially expressed in the HgCl2 and CH3HgCl treatments, respectively. Hierarchical clustering, principal components and pattern analyses indicated that the transcriptional responses of the mercurials were unique.

2013-09-09 | GSE28915 | GEO

Transcriptome analysis of mercury chloride (HgCl2) treated H1299 human non-small cell lung carcinoma cells

Project description:Purpose: finding differential transcripts usage in environmentally harzardous chemical, mercury chloride (HgCl2) in human non-small cell lung carcinoma cells Methods: transcriptome analysis by the RNA-seq via mRNA pull-down Results: We found that HgCl2 increases cellular toxicity by the increasing of apoptosis via caspase-3 independent pathway in H12999 cells. Also, over thounds of altered gene expression pattern were detected from the RNA-seq analysis. Conclusions: mercury chloride (HgCl2) increases cytotoxic effects and apoptosis in H1299 cells through the caspase-3 independent pathway and changes the context of trascript

2021-03-10 | GSE163937 | GEO

Early responses of alfalfa to mercury

Project description:After 24 h of acclimatisation Medicago sativa seedlings were treated with HgCl2 diluted on fresh MS to a final concentration of 3 uM during 3, 6 and 24 h.

2014-03-03 | E-MEXP-3876 | biostudies-arrayexpress

Pol II docking and pausing at growth and stress genes in C. elegans

Project description:Fluctuations in nutrient availability profoundly impact gene expression. Previous work revealed post-recruitment regulation of RNA Polymerase II (Pol II) during starvation and recovery in Caenorhabitis elegans, suggesting promoter-proximal pausing promotes rapid response to feeding. To test this hypothesis, we measured Pol II elongation genome-wide by two complementary approaches and analyzed elongation in conjunction with Pol II binding and expression. We confirmed bona fide pausing during starvation and also discovered Pol II docking. Pausing occurs at active stress-response genes that become down-regulated in response to feeding. In contrast M-bM-^@M-^\dockedM-bM-^@M-^] Pol II accumulates without initiating upstream of inactive growth genes that become rapidly up-regulated upon feeding. Beyond differences in function and expression, these two sets of genes have different core promoter motifs, suggesting alternative transcriptional machinery. Our work suggests that growth and stress genes are both regulated post-recruitment during starvation, but at initiation and elongation, respectively, coordinating gene expression with nutrient availability. We sequenced short, capped RNA (scRNA-seq) from N2 starved L1 C. elegans as well as a TFIIS mutant (RB2083). We also prepared scRNA-seq libraries from L1 larvae using one, two, or three of the enymes used to prepare the scRNA sequencing libraries as well as scRNA-seq libraries from Drosophila S2 cells using one or two of the enzymes. We further sequenced the 5' end of mRNA in starved C. elegans L1 larvae using the same enzymes as scRNA-seq.

2014-02-01 | E-GEOD-40161 | biostudies-arrayexpress

Alterations in gene expression in Caenorhabditis elegans associated with exposure to several classes of toxic industrial chemicals/materials.

Project description:Effective toxicological testing of the vast number of new and existing chemicals currently in use will require efficient and cost effective methods. We evaluated the utility of a simple, low cost toxicity testing system employing the nematode Caenorhabditis elegans to identify toxicologically relevant changes in gene expression. The objective of this research is to determine genomic and proteomic responses in the model nematode C. elegans to exposures to representatives of several classes of toxic industrial chemicals/materials (TICs/TIMs). A total of 3 chemicals (acrylamide, cadmium chloride, and mercuric chloride) were used in these experiments. Affymetrix GeneChip for C. elegans was used to examine genome-wide responses in the 19,000+ genes of this model organism. Mid-vulval L4 worms were exposed to one of four concentrations of acrylamide, cadmium or mercury for 4h and 8h. Exposures were performed in triplicate.

2012-11-28 | E-GEOD-42592 | biostudies-arrayexpress

Mercury toxicity in barley roots

Project description:The effects of mercury (HgCl2) on barley (Hordeum vulgare L.) growth, physiological traits and gene expression profiles were studied. The shoot to root ratio was decreased in the two levels of HgCl2 (500 and 1000 μM) assayed, which was related primarily with decreases in shoot dry weight. Moreover stomatal conductance was limited and leaf carbon isotope discrimination decreased. Therefore water uptake limitations seem to be an important component of barley responses to HgCl2. Evidences for decreased stomatal conductance and water uptake limitations were further confirmed by the over expression of ABA related transcripts and down regulation of an aquaporin in roots. Root dry weight was only affected at 1000 μM HgCl2 and root browning was observed, while several transcripts for lignin biosynthesis were up regulated in HgCl2. Microarray analysis further revealed that growth inhibition in HgCl2 was related to increased expression of genes participating in ethylene biosynthesis and down regulation of several genes participating in DNA synthesis, chromatin structure and cell division, cell wall degradation and modification, oxidative pentose phosphate cycle and nitrogen metabolism pathway. Genes involved in detoxification and defence mechanisms were up regulated including several cytochrome P450s, glucosyltransferases and glutathione-s-transferases and amino acid metabolism participatory genes. It is concluded that barley plants survive in the presence of HgCl2 through several mechanisms that include water uptake limitations, shoot and root growth regulation, increased expression of genes involved in the biosynthesis of several plant protection secondary metabolites and finally through detoxification.

2009-05-13 | GSE15295 | GEO

Transcripts regulated by elevated DKF-2 (WT background)

Project description:Transcriptional profiling was used to determine why DKF-2 (protein kinase D) deficiency and surfeit caused hypersensitivity and resistance, respectively, to a bacterial pathogen (P. aeruginosa 14). The studies show that DKF-2 contributes to C. elegans innate immunity by inducing expression of >75 genes that protect against pathogenic bacteria. Keywords: Induced imune response Three independent biological replicates were isolated for each strain. The strains for each replicate were grown and harvested in parallel.

2009-01-12 | E-GEOD-12456 | biostudies-arrayexpress

Deep sequencing of endogenous mRNA from Caenorhabditis elegans in the presence and absence of 1-methylnicotinamide (MNA) and nicotinic acid (NA)

Project description:Sirtuins, a family of histone deacetylases, have a fiercely debated role in regulating lifespan of different species. Contrasting recent observations, we here find that overexpression of sir-2.1, the orthologue of mammalian SirT1, does extend C. elegans lifespan. Sirtuins are known to convert NAD+ into nicotinamide (NAM). We here find that NAM and its metabolite, 1-methylnicotinamide (MNA), extend C. elegans lifespan, also in the absence of sir-2.1. Consistently, impairment of sir-2.1 prevents extension of lifespan by nicotinic acid (NA), a NAD+ precursor. Taken together, sirtuins extend lifespan by promoting formation of MNA to generate a phase I - mediated ROS signal, providing an unexpected mechanistic role for sirtuins beyond histone deacetylation. 9 samples: 3 mRNA profiles of C.elegans 48h after L4 exposed to nicotinic acid; 3 mRNA profiles of C.elegans 48h after L4 exposed to 1-MNA; 3 mRNA profiles of C.elegans 48h after L4 as controls (H20)

2013-08-09 | E-GEOD-49662 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data