Korean Journal of Medicinal Crop Science (한국약용작물학회지)

The Korean Society of Medicinal Crop Science (한국약용작물학회)
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Development of Simple Sequence Repeat Markers from Adenophora triphylla var. japonica (Regel) H. Hara using Next Generation Sequencing

차세대염기서열분석법을 이용한 잔대의 SSR 마커 개발

  • Park, Ki Chan (Department of Herbal Crop Research, NIHHS, RDA) ;
  • Kim, Young Guk (Department of Herbal Crop Research, NIHHS, RDA) ;
  • Hwangbo, Kyeong (Department of Industrial Plant Science and Technology, Chungbuk National University) ;
  • Gil, Jinsu (Department of Industrial Plant Science and Technology, Chungbuk National University) ;
  • Chung, Hee (Department of Industrial Plant Science and Technology, Chungbuk National University) ;
  • Park, Sin Gi (Theragen Etex Bio Institute) ;
  • Hong, Chang Pyo (Theragen Etex Bio Institute) ;
  • Lee, Yi (Department of Industrial Plant Science and Technology, Chungbuk National University)
  • 박기찬 (농촌진흥청 국립원예특작과학원 인삼특작부) ;
  • 김영국 (농촌진흥청 국립원예특작과학원 인삼특작부) ;
  • 황보경 (충북대학교 특용식물학과) ;
  • 길진수 (충북대학교 특용식물학과) ;
  • 정희 (충북대학교 특용식물학과) ;
  • 박신기 ((주)테라젠이텍스 바이오연구소) ;
  • 홍창표 ((주)테라젠이텍스 바이오연구소) ;
  • 이이 (충북대학교 특용식물학과)
  • Received : 2017.09.05
  • Accepted : 2017.10.31
  • Published : 2017.12.30
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Abstract

Background: Adenophora triphylla var. japonica (Regel) H. Hara shows vegetative growth with radical leaves during the first year and shows reproductive growth with cauline leaves and bolting during the second year. In addition, the shape of the plant varies within the same species. For this reason, there are limitations to classifying the species by visual examination. However, there is not sufficient genetic information or molecular tools to analyze the genetic diversity of the plant. Methods and Results: Approximately 34.59 Gbp of raw data containing 342,487,502 reads was obtained from next generation sequencing (NGS) and these reads were assembled into 357,211 scaffolds. A total of 84,106 simple sequence repeat (SSR) regions were identified and 14,133 primer sets were designed. From the designed primer sets, 95 were randomly selected and were applied to the genomic DNA which was extracted from five plants and pooled. Thirty-nine primer sets showing more than two bands were finally selected as SSR markers, and were used for the genetic relationship analysis. Conclusions: The 39 novel SSR markers developed in this study could be used for the genetic diversity analysis, variety identification, new variety development and molecular breeding of A. triphylla.

Keywords

References

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