Specific DNA barcodes, germplasm resources, and genetic diversity of Eleutherococcus senticosus.
10.19540/j.cnki.cjcmm.20221208.101
- Author:
Zhi-Fei ZHANG
1
;
Zhong-Zhen ZHAO
1
;
Xin WANG
1
;
Guang-Yao YIN
1
;
Ying CHEN
1
;
Jin-Hui MAN
1
;
Yue SHI
1
;
Yu-Ying HUANG
1
;
Shan-Hu LIU
1
;
Zi-Qi LIU
2
;
Xiao-Hui WANG
3
;
Sheng-Li WEI
4
Author Information
1. School of Chinese Materia Medica, Beijing University of Chinese Medicine Beijing 102488, China.
2. Heilongjiang Beicaotang Traditional Chinese Medicine Co., Ltd. Harbin 150900, China.
3. School of Chinese Materia Medica, Beijing University of Chinese Medicine Beijing 102488, China Beijing Institute of Traditional Chinese Medicine, Beijing University of Chinese Medicine Beijing 100029, China.
4. School of Chinese Materia Medica, Beijing University of Chinese Medicine Beijing 102488, China Engineering Research Center of Good Agricultural Practice for Chinese Crude Drugs of Ministry of Education Beijing 100102, China.
- Publication Type:Journal Article
- Keywords:
DNA barcoding;
Dao-di herbs;
Eleutherococcus senticosus;
chloroplast genome;
genetic diversity analysis
- MeSH:
DNA Barcoding, Taxonomic;
Eleutherococcus/genetics*;
Base Sequence;
Chloroplasts/genetics*;
Genetic Variation;
Phylogeny
- From:
China Journal of Chinese Materia Medica
2023;48(5):1229-1237
- CountryChina
- Language:Chinese
-
Abstract:
Eleutherococcus senticosus is one of the Dao-di herbs in northeast China. In this study, the chloroplast genomes of three E. senticosus samples from different genuine producing areas were sequenced and then used for the screening of specific DNA barcodes. The germplasm resources and genetic diversity of E. senticosus were analyzed basing on the specific DNA barcodes. The chloroplast genomes of E. senticosus from different genuine producing areas showed the total length of 156 779-156 781 bp and a typical tetrad structure. Each of the chloroplast genomes carried 132 genes, including 87 protein-coding genes, 37 tRNAs, and 8 rRNAs. The chloroplast genomes were relatively conserved. Sequence analysis of the three chloroplast genomes indicated that atpI, ndhA, ycf1, atpB-rbcL, ndhF-rpl32, petA-psbJ, psbM-psbD, and rps16-psbK can be used as specific DNA barcodes of E. senticosus. In this study, we selected atpI and atpB-rbcL which were 700-800 bp and easy to be amplified for the identification of 184 E. senticosus samples from 13 genuine producing areas. The results demonstrated that 9 and 10 genotypes were identified based on atpI and atpB-rbcL sequences, respectively. Furthermore, the two barcodes identified 23 genotypes which were named H1-H23. The haplotype with the highest proportion and widest distribution was H10, followed by H2. The haplotype diversity and nucleotide diversity were 0.94 and 1.82×10~(-3), respectively, suggesting the high genetic diversity of E. senticosus. The results of the median-joining network analysis showed that the 23 genotypes could be classified into 4 categories. H2 was the oldest haplotype, and it served as the center of the network characterized by starlike radiation, which suggested that population expansion of E. senticosus occurred in the genuine producing areas. This study lays a foundation for the research on the genetic quality and chloroplast genetic engineering of E. senticosus and further research on the genetic mechanism of its population, providing new ideas for studying the genetic evolution of E. senticosus.
