The characteristics of complete chloroplast genome sequence and phylogenetic analysis of Dendrobium moniliforme
10.16438/j.0513-4870.2019-0940
- VernacularTitle:细茎石斛叶绿体全基因组序列特征及系统发育分析
- Author:
Li-wei WU
1
,
2
;
Ying-xian CUI
1
,
2
;
Li-ping NIE
1
,
2
;
Zhi-chao XU
1
,
2
;
Yu WANG
1
;
Jing-yuan SONG
1
,
2
;
Lian-kui JIAO
3
;
Hui YAO
1
,
2
Author Information
1. Key Laboratory of Bioactive Substances and Resources Utilization of Chinese Herbal Medicine, Ministry of Education, Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100193, China
2. Engineering Research Center of Chinese Medicine Resources, Ministry of Education, Beijing 100193, China
3. China National Traditional Chinese Medicine Co., Ltd, Beijing 102600, China
- Publication Type:Research Article
- Keywords:
italic>Dendrobium moniliforme;
chloroplast genome;
italic>D. moniliforme complex;
phylogenetic;
Herbgenomics
- From:
Acta Pharmaceutica Sinica
2020;55(5):1056-1066
- CountryChina
- Language:Chinese
-
Abstract:
italic>Dendrobium moniliforme is an important source of Dendrobii Caulis and one of the main sources of authentic Fengdou. The complete chloroplast genome of D. moniliforme was sequenced using Illumina Hiseq technology and its gene map and genomic structure were analyzed. Then comparative and phylogenetic analysis of the complete chloroplast genomes of D. moniliforme and its related species were conducted. The chloroplast genome of D. moniliforme was 150 754 bp in length and had a typical quadripartite structure with a large single copy (LSC, 84 818 bp), a small single copy (SSC, 14 124 bp) and two inverted repeats (IRs, 25 906 bp each). A total of 123 chloroplast genes were annotated, including 77 protein-coding genes, 38 tRNA genes and 8 rRNA genes, of which 17 genes contained introns. Bioinformatics analysis identified 53 SSR sites, most of which had A-T base preference. A phylogenetic tree was constructed using the chloroplast genome sequences of 33 Dendrobium species. The results showed that Dendrobium complex species were clustered in a single large branch, indicating that they were closely related. This study provides a scientific basis for the identification of D. moniliforme and the phylogenetic relationship of D. moniliforme complex species necessary for Herbgenomics research.
