Development of eighteen polymorphic microsatellite markers in Scylla paramamosain by 5′ anchored PCR technique

Abstract

The mud crab Scylla paramamosain plays a significant role in fishery resources in China. In this study, we developed 18 polymorphic microsatellite markers in this important crab by 5' anchored PCR technique. A total of 125 alleles were detected in a single population of 32 individuals of S. paramamosain. The number of alleles per locus ranged from five to nine, with the allele size ranging from 166 to 316 bp. The polymorphism information content (PIC), observed and expected heterozygosity ranged from 0.39 to 0.88, from 0.33 to 0.92 and from 0.42 to 0.86, respectively. Three loci (Scypa13, Scypa14 and Scypa15) deviated significantly from Hardy-Weinberg equilibrium (HWE) after Bonferroni correction (P < 0.0028), and no linkage disequilibrium was found between loci pairs. These polymorphic microsatellite markers will be useful for the study of population genetic structure, construction of genetic linkage maps and mapping of economically quantitative trait loci (QTL) in S. paramamosain.

Microsatellite Markers in the Mud Crab (Scylla paramamosain) and their Application in Population Genetics and Marker- Assisted Selection

“…For microsatellite loci isolation, a total of six different strategies based on PIMA [12], FIASCO [13], GenBank-derived genes [14], 5' anchored PCR [15], cDNA library [16], and 454 sequencing transcriptome [17,18] have been employed to isolate microsatellite markers. The polymorphisms of microsatellite loci were evaluated by using a wild population with approximately 30 individuals.…”

First genetic linkage map for the mud crab (Scylla paramamosain) constructed using microsatellite and AFLP markers

“…Then, we collected all published microsatellite markers for S. paramamosain (Xu et al, 2009;Ma et al, 2011a,b,c;Cui et al, 2011b;Yao et al, 2012;Song et al, 2013;Ma et al, 2014a,b). Finally, a total of 337 microsatellite markers (S1 Table) were genotyped in the mapping family.…”

High genetic diversity and low differentiation in mud crab (Scylla paramamosain) along southeastern coast of China revealed by microsatellite markers

“…Nine polymorphic microsatellite loci were selected for genotyping, of which eight were developed using the 5Ј anchored PCR method (Cui et al, 2011), and the remaining one was developed using PCRbased isolation of microsatellite arrays (PIMA) (Ma et al, 2010) in our laboratory (Table2). The criteria for selection were as follows: annealing temperature of 50-63°C, expected product size between 110 and 320bp, observed heterozygosity value >0.5 and no stuttering bands.…”

“…Microsatellite markers have been widely used for investigation of genetic diversity (Dudaniec et al, 2010), determination of pedigree (Li et al, 2009a), construction of genetic maps (Ma et al, 2011b) and mapping of quantitative trait loci . To date, microsatellite markers have been isolated in S. paramamosain (Takano et al, 2005;Ma et al, 2010;Ma et al, 2011c;Cui et al, 2011), but no information about population genetic diversity and differentiation has been reported for this important crab species.…”