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Development of EST-SSR Markers for Cultivar Determination and Genetic Diversity Studies of Commercial Chrysanthemums in the Korean Floral Market
국내 유통국화의 품종판별체계 및 유연관계 연구를 위한 EST_SSR마커 개발
Korean J Breed Sci 2019;51(3):201-208
Published online September 1, 2019
© 2019 Korean Society of Breeding Science.

Jeong-Yun Han1, Jung-Bun Kim1, Ho-Jin Lee1, Chang Pyo Hong2, Ha-Seung Pak3, and Tae-Sung Kim1*
한정윤1 · 김정분1 · 이호진1 · 홍창표2 · 박하승3 · 김태성1*

1Department of Agriculture and Life Sciences Korea National Open University , Seoul 03087, Republic of Korea
2Theragen Bio Institute, Theragen Etex, Suwon 16229, Korea,
3Flower Research Institute, Chungcheongnam-do ARES, Yesan 32427, Republic of Korea
1한국방송통신대학교 농학과, 2㈜테라젠이텍스 테라젠바이오연구소, 3충남농업기술원 화훼연구소
Correspondence to: (E-mail:, Tel: +82-2-3668-4638)
Received July 18, 2019; Revised July 25, 2019; Accepted July 30, 2019.
This is an Open-Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License ( which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
Chrysanthemum morifolium Ramat. is one of the major flowering crop plants worldwide. However, domestic chrysanthemum markets have recently faced a downturn. To stimulate related industries, breeding technologies and efficient protection systems using molecular markers must be established. However, high cost and intensive efforts are required to develop useful molecular markers for the chrysanthemum as it is a polyploid crop with highly complex genome organization. Thus, the aim of this research was to develop expressed sequence tag-based simple sequence repeat (EST-SSR) markers, which are applicable to the chrysanthemum breeding program and cultivar protection, based on next-generation sequencing technology. From the RNAseq data of the standard chrysanthemum cultivars ‘Jungwoon’ and ‘Seinoisei,’ we identified 31,121 SSR loci and further retrieved 1,846 polymorphic SSRs. To test the marker efficiency of the 1,846 SSRs, we first chose 50 of the SSRs and designed primers by using the flanking sequences. It is noted that the nine EST_SSR markers show a single band-like amplicon, which can be exploited in various genetic studies. We proceeded to polymorphism tests for those SSRs with 56 chrysanthemum cultivars, confirming that the average polymorphism index content (PIC) was 0.69±0.058. Among those, we found that six SSRs were sufficient to specify the genetic identities of 55 chrysanthemum cultivars, which may be useful for protections of the related cultivars, as well as breeding programs, in the future.
Keywords : chrysanthemum, EST_SSR, next-generation sequencing, RNAseq, molecular marker, polymorphism

September 2019, 51 (3)
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