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Appl Plant Sci. 2018 Dec 4;6(12):e01200. doi: 10.1002/aps3.1200. eCollection 2018 Dec.

Development and characterization of 30 microsatellite loci for Plagiorhegma dubium (Berberidaceae).

Author information

1
Multidisciplinary Genome Institute Hallym University Chuncheon 24252 Republic of Korea.
2
International Biological Material Research Center Korea Research Institute of Bioscience and Biotechnology Daejeon 34141 Republic of Korea.
3
Department of Life Science Hallym University Chuncheon 24252 Republic of Korea.

Abstract

Premise of the Study:

Plagiorhegma dubium (Berberidaceae) has been listed as an endangered species in Korea due to extensive collection and destruction of natural habitats. In this study, 30 microsatellite loci, including 25 polymorphic loci, were developed for P. dubium for use in population-level genetic analyses.

Methods and Results:

We carried out transcriptome sequencing and isolated a total of 30 expressed sequence tag-simple sequence repeat markers from P. dubium using Illumina HiSeq high-throughput sequencing. To test utility of the developed markers, we genotyped 60 individuals from three populations and estimated the number of alleles and levels of observed and expected heterozygosity. Expected heterozygosity levels ranged from 0.000 to 0.594, 0.000 to 1.000, and 0.000 to 0.744 in the three populations, respectively.

Conclusions:

These transcriptome-derived simple sequence repeat markers are highly polymorphic and can be widely used in characterization of the endangered P. dubium. Population genetic studies with these markers will provide valuable insights for conservation by unraveling evolutionary patterns of P. dubium.

KEYWORDS:

Berberidaceae; EST‐SSR marker; Plagiorhegma dubium; genetic diversity; medicinal plant; microsatellites

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