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ARS Home » Northeast Area » Leetown, West Virginia » Cool and Cold Water Aquaculture Research » Research » Publications at this Location » Publication #212337

Title: PCR primer pairs for 100 microsatellites in red drum (Sciaenops ocellatus)

item Rexroad, Caird

Submitted to: Molecular Ecology Notes
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 1/4/2008
Publication Date: 6/13/2008
Citation: Karlsson, S., Renshaw, M., Rexroad III, C.E., Gold, J. 2008. Pcr primer pairs for 100 microsatellites in red drum (sciaenops ocellatus). Molecular Ecology Notes. 8:393-398.

Interpretive Summary: Genetic markers including nuclear-encoded microsatellites have proven useful for a variety of studies, including (i) assessment of population structure and genetic effective size of ‘wild’ stocks; (ii) assessment of genetic variability and inbreeding, parentage assignment, and identification of quantitative trait loci or QTLs in aquaculture stocks; and (iii) ‘anchor’ loci in construction of genetic maps. We developed 100 microsatellite markers to provide a firm basis for a red drum genetic map that should prove useful in future studies of both ‘wild’ and domesticated red drum.

Technical Abstract: One hundred nuclear-encoded microsatellites from a genomic DNA library of red drum (Sciaenops ocellatus) were isolated and characterized. Eight of the microsatellites had tetra-nucleotide motifs, while 92 had di-nucleotide motifs. The average number of alleles at the 100 microsatellites among a sample of 22-24 fish was 17.7 (range = 2-30), while gene diversity (expected heterozygosity) averaged 0.796 (range = 0.227-1.000). Following Bonferroni correction, genotypes at 90 microsatellites fit expectations of Hardy-Weinberg equilibrium, and all pairwise comparisons of microsatellites did not deviate significantly from genotypic equilibrium. Occurrence of null alleles was inferred at fifteen microsatellites.