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Yu H, Gachmaa B, Yu J, Tian-Liang, Uranghai X, Guo G, Xu W, Wang P, Liu J, Jukov A, Mandakh U, Ganbat D, Battseren T, Borjigidai A. A comprehensive and systemic review of the Gentiana: Ethnobotany, traditional applications, phytochemistry, pharmacology, and toxicology in the Mongolian Plateau. JOURNAL OF ETHNOPHARMACOLOGY 2025; 345:119573. [PMID: 40057145 DOI: 10.1016/j.jep.2025.119573] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/03/2024] [Revised: 02/08/2025] [Accepted: 02/28/2025] [Indexed: 03/15/2025]
Abstract
ETHNOPHARMACOLOGICAL RELEVANCE Gentiana is the largest genus within the Gentianaceae family, comprising around 400 species that are widely distributed in temperate alpine regions worldwide, including the Mongolian Plateau. Despite their broad distribution, no comprehensive review on the distribution, ethnobotany, traditional uses, phytochemistry, pharmacology, and toxicology of Gentiana species in the Mongolian plateau. AIM This paper aims to provide the first detailed summary of Gentiana species distributed in the Mongolian Plateau, including those in Mongolia. It comprehensively addresses their botanical characteristics, traditional applications, phytochemistry, pharmacology, and toxicity, of Gentiana, providing a scientific basis for further research and identifying gaps in knowledge. MATERIALS AND METHODS Data were collected through a comprehensive survey of journal articles, books, and dissertations from databases such as Web of Science, ScienceDirect, Google Scholar, PubMed, Springer Link, CNKI, VIP, and Wan Fang Data. Additionally, online resources like Flora of China and Plants of the World Online were consulted for species distribution and scientific name verification. Phytochemical compounds were visualized using Chem Draw 14.0 software. RESULTS This review identifies twenty-nine Gentiana species distributed in the Mongolian Plateau, with nine species having documented folkloric uses for the treating digestive, skin, joint diseases, and sore throat, etc. Phytochemical studies have led to the isolation and identification of 602 compounds, including iridoids, triterpenoids, flavonoids, lignans, coumarins, xanthones, alkaloids, fatty acids, amino acids, organic acids, and polysaccharides. Notably, gentiopicroside (75) and swertiamarin (118) are the most studied monomeric compounds. Crude extracts of Gentiana show a broad spectrum of pharmacological activities, such as anti-inflammatory, analgesic, anti-bacterial, antioxidant, anti-tumor, anti-cancer, anti-diabetic, immunomodulatory, hepatoprotective, gastroprotective, neuroprotective, and joint and bone protective activities, etc. These extracts exhibit no apparent toxicity in vivo and in vitro studies. However, clinical research on the therapeutic applications of Gentiana remains limited. CONCLUSIONS This review provides the first comprehensive summary of Gentiana species from the Mongolian Plateau, covering their distribution, morphology, phytochemistry, traditional uses, and pharmacological activities. Compared to existing literature, it offers a more thorough taxa, emphasizing key bioactive compounds such as gentiopicroside and swertiamarin, which are recognized for their anti-inflammatory and hepatoprotective effects. The review also reveals the correlation between pharmacological activities and traditional applications. Furthermore, many Gentiana species remain underexplored, highlighting significant potential for future research and the development of therapeutic applications.
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Affiliation(s)
- Hongzhen Yu
- Key Laboratory of Ethnomedicine of Ministry of Education, Minzu University of China, Beijing, China
| | - Batzaya Gachmaa
- Botanical Garden and Research Institute, Mongolian Academy of Science, Ulaanbaatar, Mongolia
| | - Jiaoneng Yu
- Key Laboratory of Ethnomedicine of Ministry of Education, Minzu University of China, Beijing, China
| | - Tian-Liang
- Hainan Key Laboratory of Research and Development of Natural Product from Li Folk Medicine, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, China
| | - Xorgan Uranghai
- Key Laboratory of Ethnomedicine of Ministry of Education, Minzu University of China, Beijing, China
| | - Guangying Guo
- Key Laboratory of Ethnomedicine of Ministry of Education, Minzu University of China, Beijing, China
| | - Weiwei Xu
- Key Laboratory of Ethnomedicine of Ministry of Education, Minzu University of China, Beijing, China
| | - Ping Wang
- Institute of Chinese Materia Medica China Academy of Chinese Medical Sciences, Beijing, China
| | - Jinxin Liu
- Key Laboratory of Ethnomedicine of Ministry of Education, Minzu University of China, Beijing, China; China Academy of Medical Sciences, Peking Union Medical College Institute of Medicinal Plant Development, Beijing, China
| | - Azzaya Jukov
- Botanical Garden and Research Institute, Mongolian Academy of Science, Ulaanbaatar, Mongolia
| | - Urtnasan Mandakh
- Institute of Geography and Geoecology, Mongolian Academy of Sciences, Ulaanbaatar, Mongolia
| | - Danzanchadav Ganbat
- Institute of Geography and Geoecology, Mongolian Academy of Sciences, Ulaanbaatar, Mongolia; College of Geographical Science, Inner Mongolia Normal University, Hohhot, 010022, China
| | - Tsambaa Battseren
- Botanical Garden and Research Institute, Mongolian Academy of Science, Ulaanbaatar, Mongolia.
| | - Almaz Borjigidai
- Key Laboratory of Ethnomedicine of Ministry of Education, Minzu University of China, Beijing, China.
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Liu Q, Song Q, Yu Y, Shi Y, Lu M, Chen Y, Tan L. Whole chloroplast genome sequence and phylogenetic analysis of Calanthe discolor (Orchidaceae). Mitochondrial DNA B Resour 2024; 9:1345-1349. [PMID: 39377034 PMCID: PMC11457340 DOI: 10.1080/23802359.2024.2411376] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2022] [Accepted: 09/24/2024] [Indexed: 10/09/2024] Open
Abstract
The orchid Calanthe discolor, which has high ornamental and medicinal value, is mainly distributed in Zhejiang, Jiangsu, and southeast Hubei Provinces of China, as well as in Japan and the southern Korean peninsula. In this study, the whole chloroplast genome sequence of C. discolor was first assembled using high-throughput Illumina paired-end technology, providing data to evaluate the evolution of this species. The C. discolor chloroplast genome was158,286 bp long, including a large single-copy region of 87,095 bp, a small single-copy region of 18,407 bp, and two copies of a repeat region (26,392-bp each). The overall G + C content was 41.2%. A total of 133 genes were predicted from the genome, including 87 protein-coding genes, eight ribosomal RNAs, 38 transfer RNAs. Phylogenetic analysis indicated a close relationship between C. discolor and C. bicolor.
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Affiliation(s)
- Qiuping Liu
- School of Life Sciences, Guizhou Normal University, Guiyang, China
| | - Qin Song
- School of Life Sciences, Guizhou Normal University, Guiyang, China
| | - Yan Yu
- Guizhou Tobacco Company, Duyun, China
| | - Yiming Shi
- School of Life Sciences, Guizhou Normal University, Guiyang, China
| | - Minghui Lu
- School of Life Sciences, Guizhou Normal University, Guiyang, China
| | - Yan Chen
- School of Life Sciences, Guizhou Normal University, Guiyang, China
| | - Leitao Tan
- School of Life Sciences, Guizhou Normal University, Guiyang, China
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Mutinda ES, Zhang DJ, Muema FW, Mkala EM, Waswa EN, Odago WO, Onyango Ochieng C, Gichua MK, Muchuku JK, Kamande E, Hu GW. The genus Balanophora J. R. Forst. & G. Forst. - Its use in traditional medicine, phytochemistry, and pharmacology: A review. JOURNAL OF ETHNOPHARMACOLOGY 2024; 319:117276. [PMID: 37866464 DOI: 10.1016/j.jep.2023.117276] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/10/2023] [Revised: 08/25/2023] [Accepted: 10/03/2023] [Indexed: 10/24/2023]
Abstract
ETHNOPHARMACOLOGICAL RELEVANCE Natural products, particularly medicinal plants, have been utilized in traditional medicine for millennia to treat various diseases. The genus Balanophora (Balanophoraceae) consists of 23 accepted species. These species are the most controversial flowering plants, with highly reduced morphologies and are found parasitizing on the roots of their host. They have been used in traditional medicine as a remedy for stomach pain, detumescence, uterine prolapse, wounds, syphilis, gonorrhea, treating injuries from falls, and other conditions. However, there is no review of this genus on its traditional uses, phytochemistry, and pharmacology. AIM The present narrative review discusses the scientific data supporting the traditional uses of Balanophora species. The available information on its botanical properties, traditional uses, chemical contents, pharmacological activities, and toxicity was summarized to help comprehend current research and offer a foundation for future research. MATERIALS AND METHODS The materials used in combining data on the genus Balanophora comprises online sources such as Web of Science, Google Scholar, Science Direct, and Chinese National Knowledge Infrastructure (CNKI) for Chinese-related materials. World Flora online was used in validating the scientific names of this genus while ChemBio Draw Ultra Version 22.2 software was employed in drawing the phytochemical compounds. RESULTS Nine Balanophora species including B. harlandii, B. japonica, B. polyandra, B. fungosa, B. fungosa subsp. indica, B. laxiflora, B. abbreviata, B. tobiracola, and B. involucrata have been documented as vital sources of traditional medicines in different parts of Asia. A total of 159 secondary metabolites have been isolated and identified from the ten species of this genus comprising tannins, flavonoids, sterols, lignans, chalcones, terpenes, and phenylpropanoids. Among these compounds, tannins, lignans, terpenoids, chalcones and phenolic acids contribute to the pharmacological activities of the species in this genus with several biological activities both in vitro and in vivo such as anti-inflammatory, anti-oxidant, hypoglycemic activity, cytotoxicity, anti-microbial, melanin synthesis etc. CONCLUSION: This review summarizes the available literature on the traditional uses, pharmacological properties, and phytoconstituents of Balanophora species indicating that they contain fascinating chemical compounds with diverse biological activities. The traditional uses of the species in this genus have been confirmed by scientific data such as antimicrobial, hemostatic effect, gastroprotective activity and others. However, many species in this genus are yet unknown in terms of their botanical uses, chemical composition and biological activities. Thus, more research into the scientific connections between traditional medicinal uses and pharmacological activities, mode of action of the isolated bioactive constituents, and toxicity of other Balanophora species is needed to determine their efficacy and therapeutic potential for safe clinical application.
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Affiliation(s)
- Elizabeth Syowai Mutinda
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China; Center of Conservation Biology, Core Botanical Gardens, Chinese Academy of Sciences, Wuhan, 430074, China
| | - Dong-Juan Zhang
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China; Center of Conservation Biology, Core Botanical Gardens, Chinese Academy of Sciences, Wuhan, 430074, China
| | - Felix Wambua Muema
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China; Center of Conservation Biology, Core Botanical Gardens, Chinese Academy of Sciences, Wuhan, 430074, China
| | - Elijah Mbandi Mkala
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China; Center of Conservation Biology, Core Botanical Gardens, Chinese Academy of Sciences, Wuhan, 430074, China
| | - Emmanuel Nyongesa Waswa
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China; Center of Conservation Biology, Core Botanical Gardens, Chinese Academy of Sciences, Wuhan, 430074, China
| | - Wyclif Ochieng Odago
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China; Center of Conservation Biology, Core Botanical Gardens, Chinese Academy of Sciences, Wuhan, 430074, China
| | - Clintone Onyango Ochieng
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China; Center of Conservation Biology, Core Botanical Gardens, Chinese Academy of Sciences, Wuhan, 430074, China
| | - Moses Kirega Gichua
- Jomo Kenyatta University of Agriculture and Technology, Nairobi, 62000-00200, Kenya
| | - John Kamau Muchuku
- Jomo Kenyatta University of Agriculture and Technology, Nairobi, 62000-00200, Kenya
| | - Elizabeth Kamande
- Jomo Kenyatta University of Agriculture and Technology, Nairobi, 62000-00200, Kenya
| | - Guang-Wan Hu
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China; Center of Conservation Biology, Core Botanical Gardens, Chinese Academy of Sciences, Wuhan, 430074, China; Hubei Jiangxia Laboratory, Wuhan, 430200, China.
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Waswa EN, Ding SX, Wambua FM, Mkala EM, Mutinda ES, Odago WO, Amenu SG, Muthui SW, Linda EL, Katumo DM, Waema CM, Yang JX, Hu GW. The genus Actinidia Lindl. (Actinidiaceae): A comprehensive review on its ethnobotany, phytochemistry, and pharmacological properties. JOURNAL OF ETHNOPHARMACOLOGY 2024; 319:117222. [PMID: 37793579 DOI: 10.1016/j.jep.2023.117222] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/11/2023] [Revised: 09/11/2023] [Accepted: 09/22/2023] [Indexed: 10/06/2023]
Abstract
ETHNOPHARMACOLOGICAL RELEVANCE Actinidia Lindl. belongs to the family Actinidiaceae. Plants of this genus are popularly known as kiwifruits and are traditionally used to treat a wide range of ailments associated with digestive disorders, rheumatism, kidney problems, cardiovascular system, cancers, dyspepsia, hemorrhoids, and diabetes among others. AIM This review discusses the ethnobotanical uses, phytochemical profile, and known pharmacological properties of Actinidia plants, to understand their connotations and provide the scientific basis for future studies. MATERIALS AND METHODS The data were obtained by surveying journal articles, books, and dissertations using various search engines such as Google Scholar, PubMed, Science Direct, Springer Link, and Web of Science. The online databases; World Flora Online, Plants of the World Online, International Plant Names Index, and Global Biodiversity Information Facility were used to confirm the distribution and validate scientific names of Actinidia plants. The isolated metabolites from these species were illustrated using ChemBio Draw ultra-version 14.0 software. RESULTS Ten (10) species of Actinidia genus have been reported as significant sources of traditional medicines utilized to remedy diverse illnesses. Our findings revealed that a total of 873 secondary metabolites belonging to different classes such as terpenoids, phenolic compounds, alcohols, ketones, organic acids, esters, hydrocarbons, and steroids have been isolated from different species of Actinidia. These compounds were mainly related to the exhibited antioxidant, antimicrobial, anti-inflammatory, antidiabetic, antiproliferative, anti-angiogenic, anticinoceptive, anti-tumor, and anticancer activities. CONCLUSION This study assessed the information related to the ethnobotanical uses, phytochemical compounds, and pharmacological properties of Actinidia species, which indicate that they possess diverse bioactive metabolites with interesting bioactivities. Actinidia plants have great potential for applications in folklore medicines and pharmaceuticals due to their wide ethnomedicinal uses and biological activities. Traditional uses of several Actinidia species are supported by scientific evidences, qualifying them as possible modern remedies for various ailments. Nonetheless, the currently available data has several gaps in understanding the herbal utilization of most Actinidia species. Thus, further research into their toxicity, mechanisms of actions of the isolated bioactive metabolites, as well as scientific connotations between the traditional medicinal uses and pharmacological properties is required to unravel their efficacy in therapeutic potential for safe clinical application.
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Affiliation(s)
- Emmanuel Nyongesa Waswa
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Shi-Xiong Ding
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Felix Muema Wambua
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Elijah Mbandi Mkala
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Elizabeth Syowai Mutinda
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Wyclif Ochieng Odago
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Sara Getachew Amenu
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Samuel Wamburu Muthui
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Elive Limunga Linda
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China; Hubei University, Wuhan, 430011, China
| | | | | | - Jia-Xin Yang
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Guang-Wan Hu
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China; Hubei Jiangxia Laboratory, Wuhan, 430200, China.
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Nanjala C, Wanga VO, Odago W, Mutinda ES, Waswa EN, Oulo MA, Mkala EM, Kuja J, Yang JX, Dong X, Hu GW, Wang QF. Plastome structure of 8 Calanthe s.l. species (Orchidaceae): comparative genomics, phylogenetic analysis. BMC PLANT BIOLOGY 2022; 22:387. [DOI: https:/doi.org/10.1186/s12870-022-03736-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/06/2021] [Accepted: 06/29/2022] [Indexed: 06/21/2023]
Abstract
AbstractBackgroundCalanthe(Epidendroideae, Orchidaceae) is a pantropical genus distributed in Asia and Africa. Its species are of great importance in terms of economic, ornamental and medicinal values. However, due to limited and confusing delimitation characters, the taxonomy of theCalanthealliance (Calanthe,Cephalantheropsis, andPhaius) has not been sufficiently resolved. Additionally, the limited genomic information has shown incongruences in its systematics and phylogeny. In this study, we used illumina platform sequencing, performed ade novoassembly, and did a comparative analysis of 8Calanthegroup species' plastomes: 6Calantheand 2Phaiusspecies. Phylogenetic analyses were used to reconstruct the relationships of the species as well as with other species of the family Orchidaceae.ResultsThe complete plastomes of theCalanthegroup species have a quadripartite structure with varied sizes ranging between 150,105bp-158,714bp, including a large single-copy region (LSC; 83,364bp- 87,450bp), a small single-copy region (SSC; 16,297bp -18,586bp), and a pair of inverted repeat regions (IRs; 25,222bp - 26,430bp). The overall GC content of these plastomes ranged between 36.6-36.9%. These plastomes encoded 131-134 differential genes, which included 85-88 protein-coding genes, 37-38 tRNA genes, and 8 rRNA genes. Comparative analysis showed no significant variations in terms of their sequences, gene content, gene order, sequence repeats and the GC content hence highly conserved. However, some genes were lost inC.delavayi(P. delavayi), includingndhC,ndhF, andndhKgenes. Compared to the coding regions, the non-coding regions had more sequence repeats hence important for species DNA barcoding. Phylogenetic analysis revealed a paraphyletic relationship in theCalanthegroup, and confirmed the position ofPhaius delavayiin the genusCalantheas opposed to its previous placement inPhaius.ConclusionThis study provides a report on the complete plastomes of 6Calantheand 2Phaiusspecies and elucidates the structural characteristics of the plastomes. It also highlights the power of plastome data to resolve phylogenetic relationships and clarifies taxonomic disputes among closely related species to improve our understanding of their systematics and evolution. Furthermore, it also provides valuable genetic resources and a basis for studying evolutionary relationships and population genetics among orchid species.
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Nanjala C, Wanga VO, Odago W, Mutinda ES, Waswa EN, Oulo MA, Mkala EM, Kuja J, Yang JX, Dong X, Hu GW, Wang QF. Plastome structure of 8 Calanthe s.l. species (Orchidaceae): comparative genomics, phylogenetic analysis. BMC PLANT BIOLOGY 2022; 22:387. [PMID: 35918646 PMCID: PMC9347164 DOI: 10.1186/s12870-022-03736-0] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/06/2021] [Accepted: 06/29/2022] [Indexed: 06/01/2023]
Abstract
BACKGROUND Calanthe (Epidendroideae, Orchidaceae) is a pantropical genus distributed in Asia and Africa. Its species are of great importance in terms of economic, ornamental and medicinal values. However, due to limited and confusing delimitation characters, the taxonomy of the Calanthe alliance (Calanthe, Cephalantheropsis, and Phaius) has not been sufficiently resolved. Additionally, the limited genomic information has shown incongruences in its systematics and phylogeny. In this study, we used illumina platform sequencing, performed a de novo assembly, and did a comparative analysis of 8 Calanthe group species' plastomes: 6 Calanthe and 2 Phaius species. Phylogenetic analyses were used to reconstruct the relationships of the species as well as with other species of the family Orchidaceae. RESULTS The complete plastomes of the Calanthe group species have a quadripartite structure with varied sizes ranging between 150,105bp-158,714bp, including a large single-copy region (LSC; 83,364bp- 87,450bp), a small single-copy region (SSC; 16,297bp -18,586bp), and a pair of inverted repeat regions (IRs; 25,222bp - 26,430bp). The overall GC content of these plastomes ranged between 36.6-36.9%. These plastomes encoded 131-134 differential genes, which included 85-88 protein-coding genes, 37-38 tRNA genes, and 8 rRNA genes. Comparative analysis showed no significant variations in terms of their sequences, gene content, gene order, sequence repeats and the GC content hence highly conserved. However, some genes were lost in C. delavayi (P. delavayi), including ndhC, ndhF, and ndhK genes. Compared to the coding regions, the non-coding regions had more sequence repeats hence important for species DNA barcoding. Phylogenetic analysis revealed a paraphyletic relationship in the Calanthe group, and confirmed the position of Phaius delavayi in the genus Calanthe as opposed to its previous placement in Phaius. CONCLUSION This study provides a report on the complete plastomes of 6 Calanthe and 2 Phaius species and elucidates the structural characteristics of the plastomes. It also highlights the power of plastome data to resolve phylogenetic relationships and clarifies taxonomic disputes among closely related species to improve our understanding of their systematics and evolution. Furthermore, it also provides valuable genetic resources and a basis for studying evolutionary relationships and population genetics among orchid species.
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Affiliation(s)
- Consolata Nanjala
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074 China
- University of Chinese Academy of Sciences, Beijing, 100049 China
- Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074 China
| | - Vincent Okelo Wanga
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074 China
- University of Chinese Academy of Sciences, Beijing, 100049 China
- Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074 China
| | - Wyclif Odago
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074 China
- University of Chinese Academy of Sciences, Beijing, 100049 China
- Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074 China
| | - Elizabeth Syowai Mutinda
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074 China
- University of Chinese Academy of Sciences, Beijing, 100049 China
- Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074 China
| | - Emmanuel Nyongesa Waswa
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074 China
- University of Chinese Academy of Sciences, Beijing, 100049 China
- Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074 China
| | - Millicent Akinyi Oulo
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074 China
- University of Chinese Academy of Sciences, Beijing, 100049 China
- Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074 China
| | - Elijah Mbandi Mkala
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074 China
- University of Chinese Academy of Sciences, Beijing, 100049 China
- Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074 China
| | - Josiah Kuja
- Department of Biology, University of Copenhagen, Copenhagen, Denmark
| | - Jia-Xin Yang
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074 China
- University of Chinese Academy of Sciences, Beijing, 100049 China
- Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074 China
| | - Xiang Dong
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074 China
- University of Chinese Academy of Sciences, Beijing, 100049 China
- Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074 China
| | - Guang-Wan Hu
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074 China
- University of Chinese Academy of Sciences, Beijing, 100049 China
- Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074 China
| | - Qing-Feng Wang
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074 China
- University of Chinese Academy of Sciences, Beijing, 100049 China
- Sino-Africa Joint Research Center, Chinese Academy of Sciences, Wuhan, 430074 China
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