Currently, we are working towards generating a rainbow trout pan-genome reference that will better represent the genetic diversity in this species using de-novo chromosome level assemblies. To that end we have previously generated the reference genome from the Arlee line, an improved assembly for the Swanson line, and a genome assembly from the Whale Rock Male line. The Swanson YY male line was originated from a semi-domesticated resident fish from the Kenai Peninsula in Alaska with a haploid number of 29 chromosomes. The Arlee doubled haploid YY male line has a different genetic background from the Swanson line. It has a haploid number of 32 chromosomes and was originated from a well-known domesticated hatchery strain that was originally collected from the northern California coast. The karyotype difference between the Swanson and Arlee lines is due to three fission or fusion events. The three Swanson metacentric chromosomes that are being divided into two acrocentric chromosomes in the Arlee karyotype are Omy04, 14 and 25. The Whale Rock line is also a YY male. Like the Arlee line, it has 2N=64 chromosomes and it was originated from the Central California Coast. The one known major difference from the Arlee line is that it was originated from a wild fish from a landlocked steelhead population. The fourth de-novo genome assembly is from a Keithley Creek (KC) male rainbow trout. The KC is from the inland lineage of rainbow trout (O. m. gairdneri) in contrast to the three previous assemblies that were done using fish from the coastal lineage (O. m. irideus). The wild resident KC population is from the Snake River Drainage of the Interior Columbia Basin. The exact Karyotype of the KC population is unknown. However, our de-novo chromosome level genome assembly provides strong support for 2N=60 number of chromosomes.