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United States Department of Agriculture

Agricultural Research Service

Research Project: IDENTIFICATION AND CHARACTERIZATION OF GENES AFFECTING COOL AND COLD WATER AQUACULTURE PRODUCTION

Location: Cool and Cold Water Aquaculture Research

Title: Development of Comparative Maps Using Microsatellites Developed from Rainbow Trout Est

Authors
item REXROAD, CAIRD
item Rodriguez, Maria
item Danzmann, Roy - UNIVERSITY OF GUELPH
item PALTI, YNIV

Submitted to: Plant and Animal Genome
Publication Type: Abstract Only
Publication Acceptance Date: March 19, 2005
Publication Date: March 19, 2005
Citation: Rexroad III, C.E., Rodriguez, M.F., Danzmann, R., Palti, Y. 2005. Development of comparative maps using microsatellites developed from rainbow tourt est. Plant and Animal Genome XIII P604, page 221.

Technical Abstract: The construction of high-density linkage maps facilitates the identification of genes affecting traits of interest. Fine mapping of those loci in species not having the benefit of whole genome BAC maps or genome sequences will heavily rely on the development of comparative maps with better studied species. Within the salmonids, microsatellites serve to construct comparative genetic maps. Using microsatellite markers developed from ESTs enables comparisons with well-studied species at greater evolutionary distances. Ninety three microsatellite markers were developed from a rainbow trout EST project. All markers were characterized with respect to 1) polymorphism; 2) cross-species amplification; 3) genome duplication as observed in clonal lines; 4) informativeness in genetic mapping families; 5) functional annotation; and 6) mapping information from human, mouse, pufferfish and zebrafish genomes. To date 88 of the markers were determined to be polymorphic, 34 were duplicated, and 23 markers were mapped. The percentage of the eighty-eight ESTs having a homolog is 22% in humans, 18% in mouse and pufferfish, and 17% in zebrafish. At this time chromosome location information is only available for the mouse and human genomes. Mapping rainbow trout ESTs in silico via BLAST resulted in the identification of the following homologous chromosome assignments: 1) OMY12 with HSA3 and MMU3 (OMM5041); 2) OMY7 with HSA8 and MMU15 (OMM5099); and 3) OMY9 with HSA16 and MMU7 (OMM5127). These assignments are consistent with previously published reports of conserved synteny between human and mouse chromosomes.

Last Modified: 8/19/2014
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