Molecular phylogenetic analyses based on the complete plastid genomes and nuclear sequences reveal Daphne (Thymelaeaceae) to be non-monophyletic as current circumscription
The diverse members of the genus Daphne are prized for their fragrant flowers. Despite being promising ornamental plants in many countries, genetic information of Daphne is scarce. In this study, the plastomes of four species and one variety of Daphne were sequenced and analyzed. The plastomes were...
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| Format: | Article |
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KeAi Communications Co., Ltd.
2022-05-01
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| Series: | Plant Diversity |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2468265921001311 |
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| author | Shiou Yih Lee Ke-Wang Xu Cui-Ying Huang Jung-Hyun Lee Wen-Bo Liao Yong-Hong Zhang Qiang Fan |
| author_facet | Shiou Yih Lee Ke-Wang Xu Cui-Ying Huang Jung-Hyun Lee Wen-Bo Liao Yong-Hong Zhang Qiang Fan |
| author_sort | Shiou Yih Lee |
| collection | DOAJ |
| description | The diverse members of the genus Daphne are prized for their fragrant flowers. Despite being promising ornamental plants in many countries, genetic information of Daphne is scarce. In this study, the plastomes of four species and one variety of Daphne were sequenced and analyzed. The plastomes were typical and contained a pair of inverted repeat (IR) regions that separated the large single-copy (LSC) region from the small single-copy (SSC) region. With a length ranging from 132,869 bp (D. genkwa) to 174,773 bp (D. championii), 106 to 141 genes were predicted. Comparative plastome analysis of the newly sequenced plastomes with four publicly available Daphne plastomes identified an expansion of the IRs, sequence variations, and mutational hotspots. Phylogenetic analyses indicated that the genus Daphne in its current circumscription is polyphyletic. Daphne genkwa was nested within the genus Wikstroemia, while D. championii was well resolved as sister to Edgeworthia. These findings concurred with results from our study that used nuclear ribosomal internal transcribed spacer sequence data. The conflicts on the molecular placement of D. championii and D. genkwa and the present taxonomic classification in Daphne suggest that a new intergeneric classification system of Daphneae warrants consideration. |
| first_indexed | 2024-04-12T17:53:53Z |
| format | Article |
| id | doaj.art-7972b89af614420a9ee166f49c56e370 |
| institution | Directory Open Access Journal |
| issn | 2468-2659 |
| language | English |
| last_indexed | 2024-04-12T17:53:53Z |
| publishDate | 2022-05-01 |
| publisher | KeAi Communications Co., Ltd. |
| record_format | Article |
| series | Plant Diversity |
| spelling | doaj.art-7972b89af614420a9ee166f49c56e3702022-12-22T03:22:25ZengKeAi Communications Co., Ltd.Plant Diversity2468-26592022-05-01443279289Molecular phylogenetic analyses based on the complete plastid genomes and nuclear sequences reveal Daphne (Thymelaeaceae) to be non-monophyletic as current circumscriptionShiou Yih Lee0Ke-Wang Xu1Cui-Ying Huang2Jung-Hyun Lee3Wen-Bo Liao4Yong-Hong Zhang5Qiang Fan6State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, 510275, Guangzhou, China; Faculty of Health and Life Sciences, INTI International University, 71800, Nilai, MalaysiaCo-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Key Laboratory of State Forestry and Grassland Administration on Subtropical Forest Biodiversity Conservation, Nanjing Forestry University, 219937, Nanjing, ChinaState Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, 510275, Guangzhou, ChinaDepartment of Biology Education, Chonnam National University, 61186, Gwangju, Republic of KoreaState Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, 510275, Guangzhou, ChinaSchool of Life Sciences, Yunnan Normal University, 650001, Kunming, China; Corresponding author.State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, 510275, Guangzhou, China; Corresponding author.The diverse members of the genus Daphne are prized for their fragrant flowers. Despite being promising ornamental plants in many countries, genetic information of Daphne is scarce. In this study, the plastomes of four species and one variety of Daphne were sequenced and analyzed. The plastomes were typical and contained a pair of inverted repeat (IR) regions that separated the large single-copy (LSC) region from the small single-copy (SSC) region. With a length ranging from 132,869 bp (D. genkwa) to 174,773 bp (D. championii), 106 to 141 genes were predicted. Comparative plastome analysis of the newly sequenced plastomes with four publicly available Daphne plastomes identified an expansion of the IRs, sequence variations, and mutational hotspots. Phylogenetic analyses indicated that the genus Daphne in its current circumscription is polyphyletic. Daphne genkwa was nested within the genus Wikstroemia, while D. championii was well resolved as sister to Edgeworthia. These findings concurred with results from our study that used nuclear ribosomal internal transcribed spacer sequence data. The conflicts on the molecular placement of D. championii and D. genkwa and the present taxonomic classification in Daphne suggest that a new intergeneric classification system of Daphneae warrants consideration.http://www.sciencedirect.com/science/article/pii/S2468265921001311DaphneaeComparative plastome analysisInternal transcribed spacer regionPolyphyletic relationshipWikstroemia |
| spellingShingle | Shiou Yih Lee Ke-Wang Xu Cui-Ying Huang Jung-Hyun Lee Wen-Bo Liao Yong-Hong Zhang Qiang Fan Molecular phylogenetic analyses based on the complete plastid genomes and nuclear sequences reveal Daphne (Thymelaeaceae) to be non-monophyletic as current circumscription Plant Diversity Daphneae Comparative plastome analysis Internal transcribed spacer region Polyphyletic relationship Wikstroemia |
| title | Molecular phylogenetic analyses based on the complete plastid genomes and nuclear sequences reveal Daphne (Thymelaeaceae) to be non-monophyletic as current circumscription |
| title_full | Molecular phylogenetic analyses based on the complete plastid genomes and nuclear sequences reveal Daphne (Thymelaeaceae) to be non-monophyletic as current circumscription |
| title_fullStr | Molecular phylogenetic analyses based on the complete plastid genomes and nuclear sequences reveal Daphne (Thymelaeaceae) to be non-monophyletic as current circumscription |
| title_full_unstemmed | Molecular phylogenetic analyses based on the complete plastid genomes and nuclear sequences reveal Daphne (Thymelaeaceae) to be non-monophyletic as current circumscription |
| title_short | Molecular phylogenetic analyses based on the complete plastid genomes and nuclear sequences reveal Daphne (Thymelaeaceae) to be non-monophyletic as current circumscription |
| title_sort | molecular phylogenetic analyses based on the complete plastid genomes and nuclear sequences reveal daphne thymelaeaceae to be non monophyletic as current circumscription |
| topic | Daphneae Comparative plastome analysis Internal transcribed spacer region Polyphyletic relationship Wikstroemia |
| url | http://www.sciencedirect.com/science/article/pii/S2468265921001311 |
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