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Series GSE47547 Query DataSets for GSE47547
Status Public on Dec 01, 2014
Title Time-dependent toxic effects of dietary TCDD on juvenile zebrafish
Organism Danio rerio
Experiment type Expression profiling by array
Summary Juvenile zebrafish were fed Biodiet starter (4% body weight per day) for 42 d with TCDD added at 0 ppb, 0.1 ppb, 1 ppb, 10 ppb or 100 ppb. Fish were collected, sexed, weighed and length measured at 0, 7, 14, 28 or 42 d for TCDD assessment, histopathologic and microarray analysis. Microarray experiments were conducted using 0 and 100 ppb-TCDD treated male and female sexed zebrafish at 7, 14, 28 and 42 d. NimbleGen Gene Expression 12X135K zebrafish microarrays and One-Color DNA labeling Kit (NimbleGen, WI) were used for genome-wide expression analysis of TCDD-treated zebrafish. TCDD accumulated in a dose- and time-dependent manner and 100 ppb TCDD caused TCDD accumulation in female (15.49 ppb) and male (18.04 ppb) fish at 28 d post exposure. TCDD caused multiple lesions in liver, kidney, intestine and ovary of zebrafish and functional dysregulation such as depletion of glycogen in liver, retrobulbar edema, degeneration of neurosensory epithelium, underdevelopment of intestine, and diminution in the fraction of ovarian follicles containing vitellogenic oocytes. At 42d, no mature female fish were observed.
 
Overall design Juvenile wild-type zebrafish (stock originally purchased from EkkWill Waterlife Resources, Ruskin, FL) (0.16 g, 2.10 cm) were were reared in 28 °C dechlorinated, filtered municipal water (DFMW) in the NIEHS Children's Environmental Health Sciences Core Center (CEHSC) animal facility. Zebrafish were fed Biodiet starter (4% body weight per day) for 42 d with TCDD added at 0 ppb, 0.1 ppb, 1 ppb, 10 ppb or 100 ppb (nominal concentration, ethanol used as vehicle). Fish were collected, sexed, weighed and length measured at 0, 7, 14, 28 or 42 d for TCDD assessment and microarray analysis. Microarray experiments were conducted using 0 and 100 ppb-TCDD treated male and female sexed zebrafish at 7, 14, 28 and 42 d. Zebrafish were randomly selected from each group for the microarray experiments. NimbleGen Gene Expression 12X135K zebrafish microarrays and One-Color DNA labeling Kit (NimbleGen, WI) were used for genome-wide expression analysis of TCDD-treated zebrafish. Differential expression analysis was performed with Bayesian Estimation of Temporal Regulation (BETR) method using Multiple Array Viewer (MeV, Dana-Farber Cancer Institute, MA) software, version 4.8.1.
 
Contributor(s) Liu Q, Huang C, Jiang N, Goetz G, Hutz RJ, Tonellato PJ, Carvan MJ
Citation(s) 24988445
Submission date May 31, 2013
Last update date Oct 11, 2022
Contact name Qing Liu
E-mail(s) liuqingcell@gmail.com
Organization name Clemson University
Department Biological Sciences
Lab Qing Liu
Street address Jordan Hall
City Clemson
State/province SC
ZIP/Postal code 29634
Country USA
 
Platforms (1)
GPL17210 NimbleGen Zebrafish 12x135K Array [090818_Zv7_EXPR]
Samples (63)
GSM1149452 Male control fish 1 at 28d [449892]
GSM1149453 Male control fish 1 at 28d [449854]
GSM1149454 Male control fish 2 at 28d [449892]
This SubSeries is part of SuperSeries:
GSE47549 Toxic effects of dietary TCDD on juvenile zebrafish
Relations
BioProject PRJNA206052

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE47547_RAW.tar 304.8 Mb (http)(custom) TAR (of CALLS, PAIR)
Processed data included within Sample table
Processed data provided as supplementary file

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