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ARS Home » Northeast Area » Leetown, West Virginia » Cool and Cold Water Aquaculture Research » Research » Publications at this Location » Publication #175025

Title: COMPARATIVE MAPPING OF EXPRESSED SEQUENCE TAGS CONTAINING MICROSATELLITES IN RAINBOW TROUT (ONCORHYNCHUS MYKISS)

Author
item Rexroad, Caird
item Rodriguez, Maria
item GHARBI, K
item DANZMANN, RG
item DEKONING, J
item PHILLIPS, R
item Palti, Yniv

Submitted to: Biomed Central (BMC) Genomics
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 4/18/2005
Publication Date: 4/18/2005
Citation: Rexroad III, C.E., Rodriguez, M.F., Gharbi, K., Danzmann, R., Dekoning, J., Phillips, R., Palti, Y. 2005. Comparative mapping of expressed sequence tags containing microsatellites in rainbow trout (oncorhynchus mykiss). Genomics. BMC Genomics 6:54.

Interpretive Summary: The genetic improvement of agriculturally important species is enhanced by the use of DNA marker technologies such as genetic mapping. The development of genetic maps for rainbow trout is facilitating the identification of genes affecting traits important to aquaculture production. We report the development and characterization of DNA markers created from genes which will help extract comparative information from genomes of other species including other salmonids, tetraodon, mouse, and human. This mapping and comparative information will aid scientists in the identification of genes affecting aquaculture production traits.

Technical Abstract: Comparative genomics, through the integration of genetic maps from species of interest with whole genome sequences of other species, will facilitate the identification of genes affecting phenotypes of interest. The development of microsatellite markers from expressed sequence tags will serve to increase marker densities on current salmonid genetic maps and initiate in silico comparative maps with species whose genomes have been fully sequenced. Eighty-nine polymorphic microsatellite markers were generated for rainbow trout of which at least 74 amplify in other salmonids. Fifty-five have been associated with functional annotation and 30 were mapped on existing genetic maps. Homologous sequences were identified for 20 of the EST containing microsatellites to identify comparative assignments within the tetraodon, mouse, and/or human genomes. The addition of microsatellite markers constructed from expressed sequence tag data will facilitate the development of high-density genetic maps for rainbow trout and comparative maps with other salmonids and better studied species.