Open Access Research article

Ecological transcriptomics of lake-type and riverine sockeye salmon (Oncorhynchus nerka)

Scott A Pavey12*, Ben JG Sutherland3, Jong Leong3, Adrienne Robb3, Kris von Schalburg3, Troy R Hamon1, Ben F Koop3 and Jennifer L Nielsen4

Author Affiliations

1 National Park Service, Katmai National Park; PO Box 7; King Salmon, AK 99613, USA

2 Department of Biological Sciences, Simon Fraser University; 8888 University Dr.; Burnaby, BC V5B 1S6 Canada

3 Centre for Biomedical Research, University of Victoria, 3800 Finnerty Rd.; Victoria, BC V8W 3N5, Canada

4 USGS Retired, 5817 Yeazell Rd KpS, Longbranch, WA 98351, USA

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BMC Ecology 2011, 11:31  doi:10.1186/1472-6785-11-31

Published: 2 December 2011

Additional files

Additional file 1:

Update of six gene annotations that were differentially expressed. Updated gene annotations for the six gene descriptions that differed substantially from the original annotation file and our use of megaBLAST and tBLASTx.

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Additional file 2:

Comparison of fold change results between microarray and RT-qPCR assays. Fold change values comparison between microarray and RT-qPCR assays. Bold values indicate statistically significantly different from 1. The full descriptions of the genes are: 72 kDa type IV collagenase precursor (Genbank:CB510651), troponin I, slow skeletal muscle (Genbank:CB510901), single-stranded DNA-binding protein, mitochondrial precursor (Genbank:CA062007), and malate dehydrogenase (Genbank: CA044864).

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Additional file 3:

Tecan HS 400 Pro hybridization protocol. Detailed description of all microarray hybridization steps.

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