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Hortic. Res.-England, Dec 2024, 11 (12) uhae257 | https://doi.org/10.1093/hr/uhae257 High-resolution genetic map and SNP chip for molecular breeding in Panax ginseng, a tetraploid medicinal plant

Woohyeon Cho^1,‡, Woojong Jang^2,‡, Hyeonah Shim¹, Jiseok Kim¹, Youngju Oh¹, Jee Young Park¹, Young Chang Kim³, Jung-Woo Lee³, Ick-Hyun Jo⁴, Misun Lee⁵, Jinsu Gil⁵, Martin Mascher⁶, Murukarthick Jayakodi⁷, Xuejiao Liao⁸, Jiang Xu ⁸, Deqiang Dou^9,*, Yi Lee^5,*and Tae-Jin Yang^1,*

¹Department of Agriculture, Forestry and Bioresources, Plant Genomics and Breeding Institute, College of Agriculture & Life Sciences, Seoul National University 1 Gwanak-ro, Gwanak-gu, Seoul 08826, Republic of Korea
²Herbal Medicine Resources Research Center, Korea Institute of Oriental Medicine, 111, Geonjae-ro, Naju, Jeollanam-do 58245, Republic of Korea
³Department of Herbal Crop Research, National Institution of Horticultural and Herbal Science, Rural Development Administration, Eumseong 27709, Republic of Korea
⁴Department of Crop Science and Biotechnology, Dankook University, Cheonan 31116, South Korea
⁵Department of Industrial Plant Science and Technology, Chungbuk National University, Cheongju 28644, Republic of Korea
⁶Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Gatersleben, Seeland 06466, Germany
⁷Department of Soil and Crop Sciences, Texas A&M AgriLife Research-Dallas, Dallas, Texas, USA
⁸Institute of Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing 100700, China
⁹College of Pharmacy, Liaoning University of Traditional Chinese Medicine, Dalian 116600, China

^*Corresponding authors.
^‡These two authors contributed equally.

Abstract

Ginseng (Panax ginseng) renowned as the king of medicinal plants. Ginseng grows slowly under shade conditions, requiring at least 4 years to produce a limited number of seeds. Molecular breeding of ginseng faces challenges due to its the tetraploid genome and the absence of an efficient molecular marker system. To overcome these obstacles, we adopted genotyping-by-sequencing to delve into genetic mapping and survey genetic diversity. We constructed a comprehensive genetic map comprising 24 linkage groups, each corresponding to one of the 24 chromosomes in the ginseng genome, based on 1216 nonredundant SNPs obtained from an F₂ mapping population. Additionally, 431 103 SNPs were identified from 119 diverse ginseng genotypes. From these, 192 informative subgenome-specific single copy SNPs were selected to develop a SNP chip. The SNP chip was used to genotype a large ginseng collection, encompassing registered cultivars, breeding lines, wild-simulated ginseng, and wild ginseng from various countries and regions. We evaluated the utility of the assay for molecular breeding with 919 ginseng genotypes. This breeder-friendly SNP chip promises versatility, enabling purity assessments of seeds and products, the authentication of species and cultivars, and the determination of homozygosity and homogeneity rates for breeding lines. Genotype data for 1200 ginseng genotypes are now stored in our database. This SNP chip lays the foundation for a molecular breeding in ginseng and will facilitate the breeding process in this medicinal crop.

논문정보

형식Research article
게재일2024년 12월 (BRIC 등록일 2024-12-16)
연구진국내(교신)+국외 연구진
분야 생명과학 > 식량작물 및 원예작물

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