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Title: Genome expression profile of early response to photobacteriosis in gilthead sea bream (Sparus aurata)      
dateReleased:
02-22-2013
description:
Analysis of the gene expression profiles of Sparus aurata head kidney after infection with Photobaterium damselae piscicida. The expression levels of 21,497 sea bream transcripts, on both directions, 24 and 48 hours post-infection, were compared with the levels detected in uninfected individuals. Sea bream individuals were exposed by immersion in 100 l of aereated sea water containing 2.89x108 CFU of a virulent Photobacterium damselae piscidida strain (249/ittio99) for 30 min. After pathogen exposure, all fish were returned to one tank. A challenge in the absence of pathogen was carried out with the same experimental procedure. For both infected and uninfected group, four (4) fish were collected at 24h and 48h post challenge and euthanized by over anesthetization, for a total of 16 individuals. Samples of head kidney were taken and stored in RNA later at -20°C until RNA extraction. Gene expression profiling was then performed using the Agilent-027679 Sparus aurata Oligo Microarray platform based on single-colour detection (Cyanine-3 only). Microarrays were scanned with Agilent scanner G2565BA (barcode on the left, DNA on the back surface, scanned through the glass) at a resolution of 5 microns; all slides were scanned twice at two different sensitivity settings (XDRHi 100% and XDRLo 10%); the scanner software created a unique ID for each pair of XDR scans and saved it to both scan image files. Feature Extraction (FE) 9.6 used XDR ID to link the pairs of scans together automatically when extracting data.
privacy:
not applicable
aggregation:
instance of dataset
ID:
E-GEOD-26651
refinement:
raw
alternateIdentifiers:
26651
keywords:
functional genomics
dateModified:
06-02-2014
availability:
available
types:
gene expression
name:
Sparus aurata
ID:
A-GEOD-11489
name:
University of Padova_Sparus aurata_4x44K_v2.0
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-26651/E-GEOD-26651.raw.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-26651/E-GEOD-26651.processed.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE26651
storedIn:
Gene Expression Omnibus
qualifier:
not compressed
format:
HTML
accessType:
landing page
primary:
true
authentication:
none
authorization:
none
abbreviation:
EBI
homePage: http://www.ebi.ac.uk/
ID:
SCR:004727
name:
European Bioinformatics Institute
homePage: https://www.ebi.ac.uk/arrayexpress/
ID:
SCR:002964
name:
ArrayExpress

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