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. 2017 Apr 18;5(4):apps.1700021.
doi: 10.3732/apps.1700021. eCollection 2017 Apr.

Development of microsatellite markers based on expressed sequence tags in Asparagus cochinchinensis (Asparagaceae)

Bo-Yun Kim  1 , Han-Sol Park  1 , Jung-Hoon Lee  1 , Myounghai Kwak  2 , Young-Dong Kim  1
Affiliations

Development of microsatellite markers based on expressed sequence tags in Asparagus cochinchinensis (Asparagaceae)

Bo-Yun Kim et al. Appl Plant Sci. .

Abstract

Premise of the study: Transcriptome-derived simple sequence repeat (SSR) markers were developed in Asparagus cochinchinensis (Asparagaceae). Due to its application in traditional medicine, its wild populations are threatened by over-collection even in protected areas, requiring immediate conservation efforts.

Methods and results: Based on transcriptome data of A. cochinchinensis, 96 primer pairs with two to seven alleles per locus were selected for initial validation; of those, 27 primer pairs amplified across all samples, resulting in 15 polymorphic and 12 monomorphic microsatellite markers. The usefulness of these markers was assessed in 60 individuals representing three populations of A. cochinchinensis. Observed and expected heterozygosity values ranged from 0.050 to 0.950 and 0.049 to 0.626, respectively. Cross-species amplification of the 27 markers was tested in the related species A. rigidulus and A. schoberioides.

Conclusions: These polymorphic, transcriptome-derived SSR markers can be used as molecular markers to study population genetics and ecological conservation in A. cochinchinensis and related taxa.

Keywords: Asparagaceae; Asparagus cochinchinensis; EST-SSR markers; genetic diversity; medicinal plant.

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References

    1. Haas B. J., Papanicolaou A., Yassour M., Grabherr M., Blood P. D., Bowden J., Couger M. B. 2013. De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis. Nature Protocols 8: 1494–1512. - PMC - PubMed
    1. Information Center for the Environment. 2013. Biological inventories of the world’s protected areas. Website http://www.ice.ucdavis.edu/bioinventory/bioinventory.html [accessed 15 January 2013].
    1. International Union for the Conservation of Nature. 2016. The IUCN Red List of Threatened Species. Version 2016-3. Website http://www.iucnredlist.org [accessed 7 December 2016].
    1. Jiang X. H., Zeng G. P., Jun O. L., She C. W. 2010. An efficient system for the production of the medicinally important plant: Asparagus cochinchinensis (Lour.) Merr. African Journal of Biotechnology 9: 6207–6212.
    1. Lee D. Y., Choo B. K., Yoon T., Cheon M. S., Lee H. W., Lee A. Y., Kim H. K. 2009. Anti-inflammatory effects of Asparagus cochinchinensis extract in acute and chronic cutaneous inflammation. Journal of Ethnopharmacology 121: 28–34. - PubMed

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