Development of polymorphic EST-SSR markers in Macrobrachium rosenbergii by data mining

Abstract

Expressed sequence tags (EST) provide a valuable and cost effective source of developing simple sequence repeat (SSR) markers. In the present study, genic microsatellite markers were developed for Macrobrachium rosenbergii through mining of EST databases. Twenty-three polymorphic EST-SSR loci were found with number of alleles ranging from 3 to 10, observed and expected heterozygosity per locus ranged from 0. 1481 to 0. 9565 and from 0. 2655 to 0. 8741, respectively. Of these SSRs, 7 showed significant homology to known genes by BLASTx (basic local alignment search tool x) search. In cross-species amplification, out of 23 polymorphic loci, there were 21 positive amplifications in M. malcolmsonii, 22 in M. gangeticum and 18 in M. lamarrei. These new EST-SSR markers will be useful for genetic studies and genome mapping of M. rosenbergii and closely related macrobrachium species. © 2012 Springer Science+Business Media B.V.