Isolation and Characterization of Polymorphic Microsatellite Loci from Metapenaeopsis barbata Using PCR-Based Isolation of Microsatellite Arrays (PIMA)

Tzen-Yuh Chiang,Feng-Jiau Lin,Ching-Ju Cho,Tzong-Der Tzeng,Hung-Du Lin

doi:10.3390/ijms13032763

Abstract

The red-spot prawn, Metapenaeopsis barbata, is a commercially important, widely distributed demersal species in the Indo-West Pacific Ocean. Overfishing has made its populations decline in the past decade. To study conservation genetics, eight polymorphic microsatellite loci were isolated. Genetic characteristics of the SSR (simple sequence repeat) fingerprints were estimated in 61 individuals from adjacent seas of Taiwan and China. The number of alleles, ranging from 2 to 4, as well as observed and expected heterozygosities in populations, ranging from 0.048 to 0.538, and 0.048 and 0.654, respectively, were detected. No deviation from Hardy–Weinberg expectations was detected at either locus. No significant linkage disequilibrium was detected in locus pairs. The polymorphic microsatellite loci will be useful for investigations of the genetic variation, population structure, and conservation genetics of this species.

Highlights

The red-spot prawn, Metapenaeopsis barbata, is a widely distributed demersal species in Indo-WestPacific from the Gulf of Bengal to Japan and Indonesia [1,2,3]
The results suggest that the microsatellite DNA loci identified in this study are highly polymorphic, and that these markers can be useful for investigating the genetic structure and management of M. barbata populations
We have developed eight polymorphic microsatellite markers that are specific for

Summary

Introduction

The red-spot prawn, Metapenaeopsis barbata, is a widely distributed demersal species in Indo-West. Pacific from the Gulf of Bengal to Japan and Indonesia [1,2,3] It is one of the abundant prawns with high commercial values [2,4]. For practicing conservation and understanding the genetic structuring across populations, codominant and highly polymorphic molecular markers are desired. Polymorphic microsatellite DNAs have been widely used in many aquacultural species to evaluate the genetic diversity [13,14], construct genetic maps [15,16], and determine species’ lineages [17], as well as for conservation and management in shrimps [16]. In order to protect and manage these overexploited wild resources of M. barbata, molecular markers are urgently needed to develop suitable strategies to maintain sustainable populations

Results and Discussion

Isolation of Microsatellite Markers

Data Analysis

Conclusions