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| Status |
Public on Nov 15, 2007 |
| Title |
Global gene expresssion profiling the gills of amoebic gill disease (AGD) affected Atlantic salmon (Salmo salar) |
| Platform organisms |
Osmerus mordax; Oncorhynchus mykiss; Salmo salar; Coregonus clupeaformis; Oncorhynchus tshawytscha |
| Sample organism |
Salmo salar |
| Experiment type |
Expression profiling by array
|
| Summary |
Amoebic gill disease (AGD) is an ectoparasitic condition of some farm-reared marine fish and is caused by Neoparamoeba perurans. Tanks housing Atlantic salmon (Salmo salar) were inoculated with Neoparamoeba perurans and fish were sampled at 36 days postinoculation (pi.). AGD-affected gill tissue was dissected from N. perurans infected fish, and a DNA microarray was used to compare global gene expression against tissues from AGD-naive fish. To determine whether the changes in gene expression were restricted to AGD-lesions, lesion tissue from AGD-affected fish was also compared with non-lesion gill tissue dissected from the same gill arch. Samples were assessed using a DNA microarray.
Keywords: comparative gene expression, parasite-induced lesion, Neoparamoeba perurans, amoebic gill disease
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| Overall design |
mRNA from lesion and non-lesion gill tissue was amplified and labeled. Six biological and two technical replicates were utilised to hybridise to 12 arrays using amplified RNA from AGD-affected lesion gill tissue with AGD-naive fish as a control. Four biological and two technical replicates were utilised to hybridise to 8 arrays using amplified RNA from AGD-affected lesion gill tissue with non-lesion tissue from the same gill arch as a control. The assignment of microarrays to treatment groups for hybridization was randomised by using a random number generator.
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| Contributor(s) |
Young ND, Cooper GA, Nowak BF, Koop BF, Morrison RN |
| Citation(s) |
18282602 |
| |
| Submission date |
Nov 13, 2007 |
| Last update date |
Apr 05, 2013 |
| Contact name |
Ben F Koop |
| E-mail(s) |
bkoop@uvic.ca
|
| Phone |
(250) 472-4067
|
| Organization name |
The University of Victoria
|
| Department |
Biology
|
| Lab |
Centre for Biomedical Research
|
| Street address |
PO Box 3020 STN CSC
|
| City |
Victoria |
| State/province |
BC |
| ZIP/Postal code |
V8W 3N5 |
| Country |
Canada |
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| Platforms (1) |
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| Samples (20)
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| GSM242710 |
Control fish 4 (CF8) vs AGD lesion fish 5 (IF8L) |
| GSM242711 |
Control fish 2 (CF6) vs AGD lesion fish 2 (IF3L) |
| GSM242712 |
AGD lesion fish 2 (IF3L) vs AGD no lesion fish 2 (IF3NL) |
| GSM242713 |
AGD lesion fish 3 (IF4L) vs Control fish 3 (CF7) |
| GSM242714 |
AGD no lesion fish 3 (IF4NL) vs AGD lesion fish 3 (IF4L) |
| GSM242715 |
AGD lesion fish 5 (IF8L) vs Control fish 4 (CF8) |
| GSM242716 |
AGD lesion fish 2 (IF3L) vs Control fish 2 (CF6) |
| GSM242717 |
Control fish 1 (CF2) vs AGD lesion fish 1 (IF1L) |
| GSM242718 |
AGD lesion fish 5 (IF8L) vs AGD no lesion fish 5 (IF8NL) |
| GSM242719 |
AGD lesion fish 1 (IF1L) vs Control fish 1 (CF2) |
| GSM242720 |
AGD lesion fish 4 (IF6L) vs Control fish 5 (CF9) |
| GSM242721 |
AGD no lesion fish 5 (IF8NL) vs AGD lesion fish 5 (IF8L) |
| GSM242722 |
AGD no lesion fish 2 (IF3NL) vs AGD lesion fish 2 (IF3L) |
| GSM242723 |
Control fish 3 (CF7) vs AGD lesion fish 3 (IF4L) |
| GSM242724 |
Control fish 5 (CF9) vs AGD lesion fish 4 (IF6L) |
| GSM242725 |
AGD lesion fish 3 (IF4L) vs AGD no lesion fish 3 (IF4NL) |
| GSM242726 |
Control fish 6 (CF10) vs AGD lesion fish 6 (IF10L) |
| GSM242727 |
AGD lesion fish 6 (IF10L) vs Control fish 6 (CF10) |
| GSM242728 |
AGD no lesion fish 1 (IF1NL) vs AGD lesion fish 1 (IF1L) |
| GSM242729 |
AGD lesion fish 1 (IF1L) vs AGD no lesion fish 1 (IF1NL) |
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| Relations |
| BioProject |
PRJNA103439 |
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