Isolation and characterization of polymorphic microsatellite loci from an EST‐library of red sea bream (Chrysophrys major) and cross‐species amplification

Abstract

Microsatellite markers have been developed from a complementary DNA (cDNA) library of red sea bream, Chrysophrys major. Twenty‐eight microsatellites were selected for designing microsatellite primers, of which 11 gave working primer pairs. Observed and expected heterozygosities varied from 0.33 to 1.00 and from 0.38 to 0.83, respectively. Five additional fish species assessed for cross‐species amplification revealed between one and six positive amplifications and between 0 and 6 polymorphic loci per species.

Development of novel EST-SSR markers in common carp by data mining from public EST sequences

“…These data are higher than those for Type II microsatellites (David et al, 2001;Tong et al, 2002;Sun and Liang, 2004), and has confirmed that EST-SSRs of common carp have higher probability of success than that of Type II microsatellites in the crossspecies amplifications among closely-related species (Yue et al, 2004). High amplification transferability of EST-SSRs has recently been reported across salmonid fishes (Rexroad et al, 2005), red sea breams (Chen et al, 2005) and shrimps (Pérez et al, 2005). The rate of success for EST-SSR primers in other species is also dependent on the source of the cDNA (Rexroad et al, 2005;Pérez et al, 2005).…”

“…black tiger shrimp (Penaeus monodon) (13.7%, Maneeruttanarungroj et al, 2006), Japanese pufferfish (Fugu rubripes) (11.5%, Edwards et al, 1998) and channel catfish (11.2%, Serapion et al, 2004), but higher than those in some other species e.g. Chinese shrimp (Fenneropenaeus chinensis) (2.2%, Wang et al, 2005), bay scallop (Argopecten irradians) (3.9%, Zhan et al, 2005), and red sea bream (Chrysophrys major) (4%, Chen et al, 2005). The abundance of EST-derived microsatellites seems to be highly species-specific in aquacultured animals studied.…”

“…Since Serapion et al (2004) first demonstrated the development of Type I marker (EST-SSRs) in an aquaculture species by using bioinformatic analysis, mining EST-SSRs from EST databases have been reported in several other aquaculture animals including fish (Yue et al, 2004;Rexroad et al, 2005;Chen et al, 2005), shrimp Pérez et al, 2005;Maneeruttanarungroj et al, 2006) and scallop (Zhan et al, 2005). Online resources of EST sequences have been increasingly accumulated in fish.…”

“…As a byproduct of EST projects in many organisms in which a vast amount of sequence data were Aquaculture 271 (2007) 558 -574 www.elsevier.com/locate/aqua-online generated, microsatellite-mining from SSR-containing ESTs is inexpensive and time-saving, and has proved to be an effective approach to develop microsatellies for genetic mapping and population genetics in animals (Serapion et al, 2004;Yue et al, 2004;Wang et al, 2005;Chen et al, 2005;Pérez et al, 2005;Maneeruttanarungroj et al, 2006) and plants (Cordeiro et al, 2001;Kantety et al, 2002;Chen et al, 2006). In aquaculture animals, Serapion et al (2004) reported a pioneer study on the development of EST-SSRs by bioinformatic mining from the channel catfish (Ictalurus punctatus) databases.…”

Isolation and characterization of 48 polymorphic microsatellite markers for the blood clam Scapharca broughtonii (Arcidae)

“…Molecular markers, especially microsatellites, are effective markers that have been widely applied to the development of marker-assisted breeding technology and conservation of this species, because of the high degree of polymorphism, abundance, neutrality, and codominant inheritance (Zhan et al, 2005;Schwartz et al, 2007). Therefore, the development of new polymorphic microsatellite markers opens new perspectives for population genetics (Chen et al, 2005). Ten and twelve microsatellite markers from S. broughtonii have been isolated by An and Park (2005) and Li and Li (2008).…”