2007 Annual Report 1a.Objectives (from AD-416) The amount of expressed sequence tag data for salmonids in public databases continues to increase. Our objectives are to nearly double the number of expressed sequence tags from the July 2004 levels for Atlantic salmon (130919) and rainbow trout (127618) and to conduct a set of analyses to extract as much information as possible from these datasets with respect to functional annotation, genome duplication, and allelic variation. 1b.Approach (from AD-416) cDNA libraries will be constructed and sequenced which target tissues and developmental stages of Atlantic salmon and rainbow trout which have not been previously characterized. Dr. Rexroad and Dr. Koop will analyze data sets by species and as a whole to assign functional annotation, identify single nucleotide polymorphisms, and distinguish between closely related members of gene families. 3.Progress Report This report serves to document research conducted under a non-funded cooperative agreement between ARS and The University of Victoria, Victoria, British Columbia, Canada entitled, “Transcriptome Analyses in Salmonids.” This agreement has the goal of identifying representatives for all salmonid genes by coordinating expressed sequence tag projects for Atlantic salmon and rainbow trout. A set of cDNA clones from Atlantic salmon and rainbow trout representing unique transcripts were identified for construction of a new high-density microarray representing over 28K transcripts for use in characterizing gene expression in salmonid species. The ADODR is in frequent contact with the cooperator through phone calls, email, and annual site visits in addition to receipt of written reports.