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United States Department of Agriculture

Agricultural Research Service

Title: Comparisons of Microsatellites Derived from Repeat-Enriched Libraries and Est in Rainbow Trout (Oncorhynchus Mykiss)

item Rexroad, Caird

Submitted to: Plant and Animal Genome
Publication Type: Abstract Only
Publication Acceptance Date: January 19, 2005
Publication Date: January 19, 2005
Citation: Coulibaly, I., Yao, J., Rexroad III, C.E. 2005. Comparisons of microsatellites derived from repeat-enriched libraries and est in rainbow trout (Oncorhynchus mykiss). Plant and Animal Genome XIII P602 pg 221.

Technical Abstract: Microsatellite markers are being developed to increase locus densities on rainbow trout genetic maps. The availability of EST data for this species provides a source of sequence data for microsatellite identification which will facilitate the development of comparative maps. A comparison was performed between microsatellite markers derived from microsatellite repeat-enriched libraries (MREL) and from Tentative Consensus sequences (TCs) in the RTGI database to demonstrate the practicalities of these approaches. Markers derived from MRELs are identified at random in the genome and are not necessarily associated with coding sequences. Markers derived from TCs are associated with coding sequences and are expected to be more conserved across species. A subset of 72 markers, 39 derived from enriched libraries and 33 derived from TC data, were characterized with respect to polymorphism, genome duplication, and cross-species amplification. MREL markers were BLASTed against the RTGI to identify associations with coding sequences, TC derived markers were BLASTed to obtain comparative annotation to support the development of comparative maps with non-salmonid species. The number of alleles, heterozygosity, and allele size variation were estimated for each marker.

Last Modified: 4/19/2015
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