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Series GSE3667 Query DataSets for GSE3667
Status Public on Mar 20, 2006
Title 1, 3, or 5 Day Post Amputation Vehicle or TCDD Exposed
Organism Danio rerio
Experiment type Expression profiling by array
Summary Adult zebrafish can completely regenerate their caudal fin following amputation. This complex process is initiated by the formation of an epithelial would cap over the amputation site by 12 hours post amputation (hpa). Once the cap is formed, mesenchymal cells proliferate and migrate from sites distal to the wound plane and accumulate under the epithelial cap forming the blastemal structure within 48 hpa. Blastemal cells proliferate and differentiate, replacing the amputated tissues, which are populated with angiogenic vessels and innervating nerves during the regenerative outgrowth phase which is completed around 14 days post amputation (dpa). Regenerative outgrowth does not occur in TCDD-exposed zebrafish. To identify the molecular pathways that are perturbed by TCDD exposure, male zebrafish were i.p. injected with 50 ng/g TCDD or vehicle and caudal fins were amputated. Regenerating fin tissue was collected at 1, 3 and 5 dpa for mRNA abundance analysis. Microarray analysis and quantitative real time PCR revealed that wound healing and regeneration alone altered the expression of nearly 900 genes by at least two fold between 1 and 5 dpa. TCDD altered the abundance of 370 genes at least two fold. Among these, several known aryl hydrocarbon responsive genes were identified in addition to several genes involved in extracellular matrix composition and metabolism. The profile of misexpressed genes is suggestive of impaired cellular differentiation and extracellular matrix composition potentially regulated by Sox9b.
Keywords: Time course and TCDD exposure response
 
Overall design Regenerating fins were isolated at 1, 3 and 5 days post amputation. Three replicates were collected at each time point. 10 fins were pooled to comprise one replicate. Fish were dosed at 0 days post amputation with vehicle control alone or 50 ng/g TCDD.

1 Day Post Amputation Vehicle Exposed: GSM85187, GSM85188, and GSM85189

1 Day Post Amputation TCDD Exposed: GSM85190, GSM85191, and GSM85192

3 Days Post Amputation Vehicle Exposed: GSM85193, GSM85194, and GSM85195

3 Day Post Amputation TCDD Exposed: GSM85196, GSM85197, and GSM85198

5 Days Post Amputation Vehicle Exposed: GSM85199, GSM85200, and GSM85201

5 Days Post Amputation TCDD Exposed: GSM85202, GSM85203, and GSM85204
 
Contributor(s) Andreasen EA, Mathew LK, Tanguay RL
Citation(s) 16443690
Submission date Nov 23, 2005
Last update date Jan 25, 2018
Contact name Robert L Tanguay
E-mail(s) robert.tanguay@oregonstate.edu
Phone 541-737-6514
Organization name Oregon State University
Department EMT
Street address 1007 ALS
City Corvallis
State/province OR
ZIP/Postal code 97331
Country USA
 
Platforms (1)
GPL1319 [Zebrafish] Affymetrix Zebrafish Genome Array
Samples (18)
GSM85187 1 dpa con b
GSM85188 1 dpa con d
GSM85189 1 dpa con e
Relations
BioProject PRJNA93803

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
GSE3667_RAW.tar 39.3 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file
Processed data included within Sample table

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