E-GEOD-52873 - Microarray data from zebrafish embryos (ZFE) exposed for 48-hr periods to oil emulsions collected from GoM shoreline sites following the Deepwater Horizon blowout.

Status
Released on 3 December 2013, last updated on 3 June 2014
Organism
Danio rerio
Samples (11)
Array (1)
Protocols (7)
Description
Zebrafish embryos/larvae are a choice model system for studying early stages of vertebrate development and how these stages can be perturbed by environmental stressors. Petrochemical combustion products elicit developmental toxicity that is associated with transcriptome changes in zebrafish embryos (ZFE). We used microarrays to characterize transcriptome changes in ZFE that had been exposed in the laboratory to oil emulsions collected from the GoM shoreline, ~9 weeks after the Deepwater Horizon blowout. ZFE were exposed to oil emulsions collected (July 1-4, 2010) at the shoreline in Gulfport, MS, Fort Morgan, AL and Perdido Key, FL. ZFE were exposed to emulsions, consisting of varying amounts of alkanes, polynuclear aromatic hydrocarbons (PAHs), sand and seawater that had been “buttered” on the bottom of cups, in which ZFE were suspended in zebrafish medium. ZFE development was monitored by light microscopy.  Control ZFE were suspended in zebrafish medium without emulsions. Gross developmental abnormalities, including axial changes, altered swimming patterns and yolk sac and pericardial sac swelling were noted and photographed.   ZFE were collected at 48-hr intervals, after exposures had begun, and either placed in clean medium for up to 48 hours more, or, were collected immediately for RNA extraction. and hybridization on Affymetrix zebrafish microarrays, each containing 14,900 probe sets. We extracted RNA from all 30 ZFE in each cup for microarray analysis.
Experiment type
transcription profiling by array 
Contacts
Rui Xiao <ruixiao85@gmail.com>, Allen Bui, Arthur Penn, Frances Xin, Kevin Kleinow, Paula Polk, Zakia Perveen
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-GEOD-52873.idf.txt
Sample and data relationshipE-GEOD-52873.sdrf.txt
Raw data (1)E-GEOD-52873.raw.1.zip
Processed data (1)E-GEOD-52873.processed.1.zip
Array designA-AFFY-38.adf.txt
Links