RT Journal
A1 Rise, Matthew L.
A1 von Schalburg, Kristian R.
A1 Brown, Gordon D.
A1 Mawer, Melanie A.
A1 Devlin, Robert H.
A1 Kuipers, Nathanael
A1 Busby, Maura
A1 Beetz-Sargent, Marianne
A1 Alberto, Roberto
A1 Gibbs, A. Ross
A1 Hunt, Peter
A1 Shukin, Robert
A1 Zeznik, Jeffrey A.
A1 Nelson, Colleen
A1 Jones, Simon R.M.
A1 Smailus, Duane E.
A1 Jones, Steven J.M.
A1 Schein, Jacqueline E.
A1 Marra, Marco A.
A1 Butterfield, Yaron S.N.
A1 Stott, Jeff M.
A1 Ng, Siemon H.S.
A1 Davidson, William S.
A1 Koop, Ben F.
T1 Development and Application of a Salmonid EST Database and cDNA Microarray: Data Mining and Interspecific Hybridization Characteristics
JF Genome Research 
JO Genome Research 
YR 2004 
FD March 01 
VO 14 
IS 3 
SP 478 
OP 490 
DO 10.1101/gr.1687304 
UL http://genome.cshlp.org/content/14/3/478.abstract 
AB We report 80,388 ESTs from 23 Atlantic salmon (Salmo salar) cDNA libraries (61,819 ESTs), 6 rainbow trout (Oncorhynchus mykiss) cDNA libraries (14,544 ESTs), 2 chinook salmon (Oncorhynchus tshawytscha) cDNA libraries (1317 ESTs), 2 sockeye salmon (Oncorhynchus nerka) cDNA libraries (1243 ESTs), and 2 lake whitefish (Coregonus clupeaformis) cDNA libraries (1465 ESTs). The majority of these are 3′ sequences, allowing discrimination between paralogs arising from a recent genome duplication in the salmonid lineage. Sequence assembly reveals 28,710 different S. salar, 8981 O. mykiss, 1085 O. tshawytscha, 520 O. nerka, and 1176 C. clupeaformis putative transcripts. We annotate the submitted portion of our EST database by molecular function. Higher- and lower-molecular-weight fractions of libraries are shown to contain distinct gene sets, and higher rates of gene discovery are associated with higher-molecular weight libraries. Pyloric caecum library group annotations indicate this organ may function in redox control and as a barrier against systemic uptake of xenobiotics. A microarray is described, containing 7356 salmonid elements representing 3557 different cDNAs. Analyses of cross-species hybridizations to this cDNA microarray indicate that this resource may be used for studies involving all salmonids.