|
| Status |
Public on Jun 09, 2012 |
| Title |
Heart ventricle, poor swimmer, fish 4 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Heart ventricle of challenged salmon, poor swimmer
|
| Organism |
Salmo salar |
| Characteristics |
group: poor swimmer
tissue: heart ventricle
developmental stage: post-smolt
treatment: infectious pancreatic necrosis virus (IPNV) challenge
|
| Treatment protocol |
A cohabitation challenge test started when 20% of IPN-infected challenger fish were added to the experimental tank. A similar proportion of uninfected smolts were added to the unchallenged tank, keeping similar densities in both tanks. Challenger fish were previously marked by a fin clip and injected with 5 ml of ~3 x 106 TCID50/ml of IPNV.
|
| Growth protocol |
Salmon (average weight 100g) were kept in tanks with seawater.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using the iPrep™ TRIzol® Plus kit (Invitrogen), and purified with PureLink RNA mini kits.
|
| Label |
Cy5
|
| Label protocol |
Amplified and labeled according to the Agilent Two-Color Microarray-Based Gene Expression Analysis protocol using the Agilent Quick Amp Labelling Kit.
|
| |
|
| Channel 2 |
| Source name |
Heart ventricle of un-challenged salmon (n=9)
|
| Organism |
Salmo salar |
| Characteristics |
tissue: heart ventricle
treatment: no challenge
sample type: reference
|
| Treatment protocol |
A cohabitation challenge test started when 20% of IPN-infected challenger fish were added to the experimental tank. A similar proportion of uninfected smolts were added to the unchallenged tank, keeping similar densities in both tanks. Challenger fish were previously marked by a fin clip and injected with 5 ml of ~3 x 106 TCID50/ml of IPNV.
|
| Growth protocol |
Salmon (average weight 100g) were kept in tanks with seawater.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using the iPrep™ TRIzol® Plus kit (Invitrogen), and purified with PureLink RNA mini kits.
|
| Label |
Cy3
|
| Label protocol |
Amplified and labeled according to the Agilent Two-Color Microarray-Based Gene Expression Analysis protocol using the Agilent Quick Amp Labelling Kit.
|
| |
|
| |
| Hybridization protocol |
Hybridized according to the Agilent Two-Color Microarray-Based Gene Expression Analysis protocol for 4x44k microarrays.
|
| Scan protocol |
Arrays were scanned with a GenePix 4100A DNA microarray scanner at a resolution of 5 microns.
|
| Description |
S6He5A2
|
| Data processing |
Images were processed using the standard procedures of the Agilent Feature Extraction (FE) Software version 9.5.1 and GenePix Pro 6.0. After removal of flagged spots, Lowess normalization was performed.
|
| |
|
| Submission date |
Jun 08, 2012 |
| Last update date |
Jun 09, 2012 |
| Contact name |
Aleksei Krasnov |
| E-mail(s) |
aleksei.krasnov@nofima.no
|
| Phone |
+47 97602165
|
| Organization name |
Nofima AS
|
| Department |
Fish Health
|
| Street address |
Osloveien 1
|
| City |
Aas |
| ZIP/Postal code |
1430 |
| Country |
Norway |
| |
|
| Platform ID |
GPL15678 |
| Series (1) |
| GSE38603 |
Exercise training effects on disease resistance are dependent on training regimes and inherent swimming performance in Atlantic salmon |
|
