2008 Annual Report 1a.Objectives (from AD-416) To generate an integrated physical and genetic map for rainbow trout. 1b.Approach (from AD-416) Use BAC DNA fingerprinting to construct a physical map and BAC end sequencing to identify genetic markers for integration of the physical and gentic maps. 3.Progress Report The first physical map for the rainbow trout genome was generated in FY08. The current version of the map is composed of 154,439 clones of which 145,060 are in contigs and 9,379 are singles. It has 4,173 contigs of which only 811 contain Q-clones. In addition, the BAC library was screened by PCR to identify BACs that harbor 137 genetic markers that represent 25 of the rainbow trout 29 chromosomes, as the first step in the integration of the genetic and physical maps. The ADODR is in frequent contact with the cooperator through phone calls, email, and annual site visits in addition to receipt of written reports. National Program 106, Component 3, Genetic Improvement.