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Unknown,Transcriptomics,Genomics,Proteomics

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C. elegans : Control vs. Chlorpyrifos (0.5mg/ml) treatment

ABSTRACT: Transcriptional profile of C. elegans comparing control vs. nematodes treated with 0.5mg/ml of Chorpyrifos (CPF) at 16°C. Toxicant was added to agar and nematode culture on petri dishes for 72h before harvesting. One condition experiment with six biological replicates in a dye swap design.

ORGANISM(S): Caenorhabditis elegans

SUBMITTER: Ana Viñuela

PROVIDER: E-GEOD-16688 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Genome-wide gene expression analysis in response to organophosphorus pesticide chlorpyrifos and diazinon in C. elegans.

Viñuela Ana A Snoek L Basten LB Riksen Joost A G JA Kammenga Jan E JE

PloS one 20100816 8

Organophosphorus pesticides (OPs) were originally designed to affect the nervous system by inhibiting the enzyme acetylcholinesterase, an important regulator of the neurotransmitter acetylcholine. Over the past years evidence is mounting that these compounds affect many other processes. Little is known, however, about gene expression responses against OPs in the nematode Caenorhabditis elegans. This is surprising because C. elegans is extensively used as a model species in toxicity studies. To a ...[more]

PMID: 20808445

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C. elegans : Control vs. Chlorpyrifos and Diazinon treatments at 24oC

Project description:This SuperSeries is composed of the following subset Series: GSE24229: C. elegans : Control vs. Chlorpyrifos (0.5mg/l) treatment GSE24230: C. elegans : Control vs. Diazinon (0.5mg/l) treatment GSE24254: C. elegans : Control vs. Chorpyrifos (0.5mg/l) + Diazinon (1 mg/l) treatment Refer to individual Series

2011-07-31 | E-GEOD-24257 | biostudies-arrayexpress

C. elegans : Control vs.Chlorpyrifos and Diazinon treatments

Project description:This SuperSeries is composed of the following subset Series: GSE16686: C. elegans : Control vs. Diazinon (1 mg/ml) treatment GSE16688: C. elegans : Control vs. Chlorpyrifos (0.5mg/ml) treatment GSE16698: C. elegans : Control vs. Chlorpyrifos (0.5mg/ml) + Diazinon (1 mg/ml) treatment Refer to individual Series

2010-07-22 | E-GEOD-16719 | biostudies-arrayexpress

C. elegans : Control vs. Diazinon (0.5mg/l) treatment

Project description:Transcriptional profile of C. elegans comparing control vs. nematodes treated with 0.5mg/l of Diazinon (DZN) at 24°C. Toxicant was added to agar and nematode culture on petri dishes for 72h before harvesting. One condition experiment with six biological replicates in a dye swap design.

2011-07-31 | E-GEOD-24230 | biostudies-arrayexpress

C. elegans : Control vs. Diazinon (1 mg/ml) treatment

Project description:Transcriptional profile of C. elegans comparing control vs. nematodes treated with 1mg/ml of Diazinon (DZN) at 16°C. Toxicant was added to agar and nematode culture on petri dishes for 72h before harvesting. One condition experiment with six biological replicates in a dye swap design.

2010-07-22 | E-GEOD-16686 | biostudies-arrayexpress

C. elegans : Control vs. Chlorpyrifos (0.5mg/ml) + Diazinon (1 mg/ml) treatment

Project description:Transcriptional profile of C. elegans comparing control vs. nematodes treated with 0.5 mg/ml of Chlorpyrifos and 1mg/ml of Diazinon (DZN) at 16°C. Toxicant was added to agar and nematode culture on petri dishes for 72h before harvesting. One condition experiment with six biological replicates in a dye swap design.

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2011-07-31 | E-GEOD-24229 | biostudies-arrayexpress

C. elegans : Control vs. Chorpyrifos (0.5mg/l) + Diazinon (1 mg/l) treatment

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Dynamic gene expression of two Caenorhabditis elegans wild type strains (N2 and CB4856)

Project description:We analyzed the consequences of recombination in gene expression. For this, we measured expression patterns in two C. elegans wild types, N2 and CB4856 (CB). We compare these profiles with gene expression values from a Recombinant Inbred Population (RIL) derived from the same wild types. Expression values of the RILs (GSE17071) were obtained from ViÃ±uela et al. (Genome Research, 2010). N2 and CB strain nematodes were cultured in identical conditions. Likewise, mRNA was extracted at three different ages (juveniles, reproductive and old worms) to investigate the transcriptional consequences of recombination in aging worms. Then, we explored gene expression heritability and transgression as genetic parameters for the analysis of gene expression divergence in natural isolates. Moreover, we investigated the progression of those parameters with age. In total, 14 dual-color microarrays were done on two wild type strains (N2 and CB4856) and three age groups (40, 96, and 214 hours). 5 replicates of t1 (juvenile) and t3 (senescent) samples, and 4 replicates of t2 (reproductive) samples, in a dye-swap design.

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Dynamic gene expression of Recombinant Inbred Lines (RILs) in C. elegans

Project description:We mapped quantitative trait loci for genome-wide gene expression (eQTL) in juvenile, reproductive and senescent C. elegans recombinant inbred lines, to determine heritable transcript dynamics in total 54 dual color microarrays were done on three age groups.

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Global genetic robustness of the alternative splicing machinery in C. elegans

Project description:Alternative splicing is considered a major mechanism for creating multicellular diversity from a limited repertoire of genes. Different isoforms can be produced at the same time in the same cell type and their ratios can be the same or different between divergent genotypes. Here, we studied genetic variation in alternative splicing patterns in a large recombinant inbred population of C. elegans, using whole-genome tiling arrays. This experiment allowed us to detect heritable differences in gene expression with exquisite sensitivity and resolution, and we detected 435 genes with substantial heritable variation for at least one exon. Nonetheless, we find only a very small number of examples of heritable variation in alternative splicing (22 transcripts), and most of these genes co-localize with the associated genomic loci. This is in striking contrast to earlier observations in humans, which showed much less genetic robustness. C. elegans recombinant inbred lines were generated and genotyped as described in (Li et al. 2006). mRNA was isolated from 60 RILs reared under standard condition and hybridized to Affymetrix 1.0 C. elegans tiling arrays. The hybridization was done by ServiceXS (Leiden, The Netherlands).

2011-01-01 | E-GEOD-15778 | biostudies-arrayexpress

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