Specific DNA barcodes screening, germplasm resource identification, and genetic diversity analysis of Platycodon grandiflorum
10.16438/j.0513-4870.2023-0497
- VernacularTitle:桔梗特异DNA条形码筛选、种质资源鉴定及遗传多样性分析
- Author:
Xin WANG
1
;
Yue SHI
2
;
Jin-hui MAN
1
;
Yu-ying HUANG
1
;
Xiao-qin ZHANG
1
;
Ke-lu AN
1
;
Gao-jie HE
1
;
Zi-qi LIU
3
;
Fan-yuan GUAN
1
;
Yu-yan ZHENG
1
;
Xiao-hui WANG
4
;
Sheng-li WEI
1
Author Information
1. School of Chinese Pharmacy, Beijing University of Chinese Medicine, Beijing 102488, China
2. School of Life Sciences, Beijing University of Chinese Medicine, Beijing 102488, China
3. Heilongjiang Nuochu Medical Materials Planting Co., Ltd., Harbin 150600, China
4. Modern Research Center for Traditional Chinese Medicine, Beijing Institute of Traditional Chinese Medicine, Beijing University of Chinese Medicine, Beijing 102488, China
- Publication Type:Research Article
- Keywords:
italic>Platycodon grandiflorum;
chloroplast genome;
DNA barcode;
germplasm resource;
genetic diversity
- From:
Acta Pharmaceutica Sinica
2024;59(1):243-252
- CountryChina
- Language:Chinese
-
Abstract:
Platycodonis Radix is the dry root of Platycodon grandiflorum of Campanulaceae, which has a variety of pharmacological effects and is a commonly used bulk Chinese medicine. In this study, the chloroplast genome sequences of six P. grandiflorum from different producing areas has been sequenced with Illumina HiSeq X Ten platform. The specific DNA barcodes were screened, and the germplasm resources and genetic diversity were analyzed according to the specific barcodes. The total length of the chloroplast genome of 6 P. grandiflorum samples was 172 260-172 275 bp, and all chloroplast genomes showed a typical circular tetrad structure and encoded 141 genes. The comparative genomics analysis and results of amplification efficiency demonstrated that trnG-UCC and ndhG_ndhF were the potential specific DNA barcodes for identification the germplasm resources of P. grandiflorum. A total of 305 P. grandiflorum samples were collected from 15 production areas in 9 provinces, for which the fragments of trnG-UCC and ndhG_ndhF were amplificated and the sequences were analyzed. The results showed that trnG-UCC and ndhG_ndhF have 5 and 11 mutation sites, respectively, and 5 and 7 haplotypes were identified, respectively. The combined analysis of the two sequences formed 13 haplotypes (named Hap1-Hap13), and Hap4 is the main genotype, followed by Hap1. The unique haplotypes possessed by the three producing areas can be used as DNA molecular tags in this area to distinguish from the germplasm resources of P. grandiflorum from other areas. The haplotype diversity, nucleotide diversity and genetic distance were 0.94, 4.79×10-3 and 0.000 0-0.020 3, respectively, suggesting that the genetic diversity was abundant and intraspecific kinship was relatively close. This study laid a foundation for the identification of P. grandiflorum, the protection and utilization of germplasm resources, and molecular breeding.
