Next Generation Sequencing Analysis of Prenatal Chlorpyrifos Exposure embryonic kidneys
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PROVIDER: PRJNA543087 | ENA |
REPOSITORIES: ENA
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Project description:Purpose: In order to study signaling pathway changes of prenatal chlorpyrifos exposure embryonic kidney development Methods: By using RNA-seq, we studied the transcriptome of E12.5, E14.5, E16.5 and E18.5 prenatal chlorpyrifos exposure embryonic kidneys and DMSO exposure (control) embryonic kidneys Results: We show that Notch signaling pathway and aquaporin family had high expression in chlorpyrifos exposure E18.5 kidney. The nephron progenitor markers had low expression in chlorpyrifos exposure embryonic kidneys
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Project description:Here, we investigated whether prenatal exposure to nicotine alters kidney glomerular mass and genome-wide gene expression profiles in two genetically distant strains of rats, namely spontaneously hypertensive rats (SHR) and Brown Norway (BN) rats. Nicotine or saline were administered to BN and SHR dams via osmotic pumps throughout gestation. Kidneys from 9-week-old male offspring were studied.
2012-12-25 | GSE29677 | GEO
Project description:Here, we investigated whether prenatal exposure to nicotine alters kidney glomerular mass and genome-wide gene expression profiles in two genetically distant strains of rats, namely spontaneously hypertensive rats (SHR) and Brown Norway (BN) rats. Nicotine or saline were administered to BN and SHR dams via osmotic pumps throughout gestation. Kidneys from 9-week-old male offspring were studied. Equal amounts of RNA from individual animals were pooled within each of the four experimental groups SHR (nicotine: n=13; saline: n=12) and BN (nicotine: n=12; saline: n=12) and hybridized with the Rat RAE-230a GeneChip (Affymetrix).
2012-12-25 | E-GEOD-29677 | biostudies-arrayexpress
Project description:Comparative analysis of gene expression patterns between prenatal (embryonic e16d) and postnatal (p1d and p7d) mouse kidney Total RNA was isolated of e16 kidney embryos, and kidneys from mice at posnatal day 1 and day 7
2011-09-30 | E-GEOD-28054 | biostudies-arrayexpress
Project description:Chlorpyrifos is an organophosphorus insecticide that despite imposed restricitions on its use by the EPA, is one of the most commonly used insecticides. Although CPF is so widely used little is known about its effect on overall gene expression in vivo. DNA microarray technology was used to determine differential gene expression resulting from chlorpyrifos (CPF) exposure. Experiment Overall Design: Male Fisher 344 rats aged 11-12 weeks were treated with varying doses of chlorpyrifos (CPF) and terminally sacced at 96 hours post-exposure in three separate experiments. An approximate 30mg section of the frontal lobe of the brain was processed for total RNA extraction.
2008-06-16 | E-GEOD-9751 | biostudies-arrayexpress
Project description:Background: How prenatal smoke exposure affects DNA methylation leading to atopic disorders remains to be addressed. Epigenetic biomarkers informative of prenatal smoke exposure and atopic disorders are wanting. Since most children suffering from atopic dermatitis (AD) continue to develop asthma later in life, we explored whether prenatal smoke exposure e induces DNA methylation and searched for predictive epigenetic biomarkers for smoke related atopic disorders. Methods: Methylation differences associated with smoke exposure were screened by Illumina methylation panel for children from the Taiwan birth panel study cohort initially. Information about development of atopic dermatitis (AD) and risk factors were collected. Cord blood cotinine levels were measured to represent prenatal smoke exposure. CpG loci that demonstrated a statistically significant difference in methylation were validated by methylation-dependent fragment separation (MDFS). Differential methylation in three genes (TSLP, GSTT1, and CYB5R3) was identified through the screen and their functions were investigated. Results: Among these, only thymic stromal lymphopoietin (TSLP) gene displayed significant difference in promoter methylation percentage after being validated by MDFS (p=0.029). TSLP gene was further investigated in a larger sample of 92 children from the cohort. Methylation status of the TSLP 5′-CpG island (CGI) was found to be significantly associated with prenatal smoke exposure (OR=3.59, 95%CI=1.49-8.64; cotinine level 0.10 ng/ml, sensitivity= 77%; specificity = 61%) and with AD (OR=4.77, 95%CI=1.47-15.53). The degree of TSLP 5′CGI methylation inversely correlated with TSLP protein expression levels (per unit: β=－6.69 ng/ml; 95% CIs, －12.80~－0.59; p=0.032). Conclusions: The effect of prenatal tobacco smoke exposure on the risk for AD may be mediated through DNA methylation. Cord blood methylated TSLP 5′CGI may be a potential epigenetic biomarker for environmentally-related atopic disorders. The buffy coat and plasma samples were separated and stored at −80°C. DNA (100 ng-500 ng) was extracted from cord white blood cells. Microarrays have been performed to investigate fourteen samples, which were classified as two groups according to cotinine exposure dosage (7 versus 7 : high exposure verses low exposure).
2013-12-31 | E-GEOD-35222 | biostudies-arrayexpress