Characterization and phylogenetic analysis of the complete chloroplast genome of Lycopus europaeus
10.16438/j.0513-4870.2022-0208
- VernacularTitle:欧地笋叶绿体全基因组序列特征及其系统发育分析
- Author:
Qing DU
1
;
Li-qiang WANG
2
;
Zhuo-er CHEN
3
;
Mei JIANG
4
;
Hai-mei CHEN
5
;
Jing ZENG
3
;
Bin WANG
6
;
Chang LIU
5
Author Information
1. Key Laboratory of Medicinal Plant Resources of Qinghai-Tibetan Plateau in Qinghai Province, College of Pharmacy, Qinghai Minzu University, Xining 810007, China; Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100193, China; Fresh Sky-Right (Beijing) International Science and Technology Co. Ltd., Beijing 100097, China
2. College of Pharmacy, Heze University, Heze 274015, China
3. Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100193, China; College of Pharmacy, Xiangnan University, Chenzhou 423099, China
4. School of Pharmaceutical Sciences, Qilu University of Technology (Shandong Academy of Sciences), Jinan 250200, China
5. Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100193, China
6. College of Pharmacy, Xiangnan University, Chenzhou 423099, China
- Publication Type:Research Article
- Keywords:
Lamiaceae;
italic>Lycopus europaeus;
italic>L. lucidus Turcz. var. hirtus Regel;
chloroplast genome;
sequence characteristics;
repeats sequence;
phylogenetic evolution
- From:
Acta Pharmaceutica Sinica
2022;57(7):2206-2215
- CountryChina
- Language:Chinese
-
Abstract:
We intend to study the structural characteristics of Lycopus europaeus Linn. chloroplast genome and compare the evolutionary relationship of species from Lamiaceae with similar medicinal effects. The total DNA of Lycopus europaeus was sequenced using the Illumina Hiseq 4000 Sequencing platform and was assembled using NOVOplasty software. And then we annotated and analyzed the genome using the CPGAVAS2 online tool. We constructed the phylogenetic tree using the Stellera chamaejasme and Potentilla chinensis as the outgroup. The whole length of Lycopus europaeus chloroplast genome was 152 085 bp. A total of 132 genes were annotated including 88 protein-coding genes, 8 rRNA genes and 36 tRNA genes. Among them, 8 protein-coding genes (ndhB, rps7, rps12, rps19, rpl2, rpl23, ycf2, ycf15), 7 tRNA coding genes (trnM-CAU, trnL CAA, trnN-GUU, trnE-UUC, trnV-GAC, trnA-UGC, trnR-ACG) and 4 rRNA coding genes (rrn16s, rrn23s, rrn4.5s, rrn5s) are located in the IR region. There are 13 protein coding genes [rps16, rps19 (×2), atpF, rpoC1, rpl2 (×2), petB, petD, rpl16, ndhB (×2), ndhA] each contains one intron, two protein-coding genes (ycf3, clpP) each contain two introns, and 8 tRNA coding genes each contain one intron. A total of 34 SSRs were detected in the chloroplast genome of Lycopus europaeus. Phylogenetic analysis revealed that two species in the Lycopus genus, four species in the Dracocephalum genus, Glechoma longituba, two species in the Mentha genus and Prunella vulgari, in total 10 species are most related. The complete genome sequence of Lycopus europaeus was obtained and analyzed, which clarified the evolutional relationship between the species of Lycopus europaeus and in the Lamiaceae family.
