The complete plastomes of thirteen Libanotis (Apiaceae, Apioideae) plants: comparative and phylogenetic analyses provide insights into the plastome evolution and taxonomy of Libanotis
Abstract Background The genus Libanotis Haller ex Zinn, nom. cons., a contentious member of Apiaceae, encompasses numerous economically and medicinally significant plants, comprising approximately 30 species distributed across Eurasia. Despite many previous taxonomic insights into it, phylogenetic s...
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| Format: | Article |
| Language: | English |
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BMC
2024-02-01
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| Series: | BMC Plant Biology |
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| Online Access: | https://doi.org/10.1186/s12870-024-04784-4 |
| _version_ | 1827328037899730944 |
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| author | Li-Jia Liu Chang-Kun Liu Jing Cai Jiao-Jiao Deng Xing‑Jin He Song‑Dong Zhou |
| author_facet | Li-Jia Liu Chang-Kun Liu Jing Cai Jiao-Jiao Deng Xing‑Jin He Song‑Dong Zhou |
| author_sort | Li-Jia Liu |
| collection | DOAJ |
| description | Abstract Background The genus Libanotis Haller ex Zinn, nom. cons., a contentious member of Apiaceae, encompasses numerous economically and medicinally significant plants, comprising approximately 30 species distributed across Eurasia. Despite many previous taxonomic insights into it, phylogenetic studies of the genus are still lacking. And the establishment of a robust phylogenetic framework remains elusive, impeding advancements and revisions in the taxonomic system for this genus. Plastomes with greater variability in their genetic characteristics hold promise for building a more robust Libanotis phylogeny. Results During our research, we sequenced, assembled, and annotated complete plastomes for twelve Libanotis species belong to three sections and two closely related taxa. We conducted a comprehensive comparative analysis through totally thirteen Libanotis plastomes for the genus, including an additional plastome that had been published. Our results suggested that Libanotis plastome was highly conserved between different subclades, while the coding regions were more conserved than the non-coding regions, and the IR regions were more conserved than the single copy regions. Nevertheless, eight mutation hotspot regions were identified among plastomes, which can be considered as candidate DNA barcodes for accurate species identification in Libanotis. The phylogenetic analyses generated a robustly framework for Libanotis and revealed that Libanotis was not a monophyletic group and their all three sections were polygenetic. Libanotis schrenkiana was sister to L. sibirica, type species of this genus, but the remainders scattered within Selineae. Conclusion The plastomes of Libanotis exhibited a high degree of conservation and was effective in enhancing the support and resolution of phylogenetic analyses within this genus. Based on evidence from both phylogeny and morphology, we propose the recognition of "Libanotis sensu stricto" and provide taxonomic recommendations for other taxa that previously belonged to Libanotis. In conclusion, our study not only revealed the phylogenetic position and plastid evolution of Libanotis, but also provided new insights into the phylogeny of the family Apiaceae and phylogenetic relationships within the tribe Selineae. |
| first_indexed | 2024-03-07T15:11:13Z |
| format | Article |
| id | doaj.art-91111bf5988e47b5bf72745e1b427ab4 |
| institution | Directory Open Access Journal |
| issn | 1471-2229 |
| language | English |
| last_indexed | 2024-03-07T15:11:13Z |
| publishDate | 2024-02-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Plant Biology |
| spelling | doaj.art-91111bf5988e47b5bf72745e1b427ab42024-03-05T18:38:25ZengBMCBMC Plant Biology1471-22292024-02-0124111710.1186/s12870-024-04784-4The complete plastomes of thirteen Libanotis (Apiaceae, Apioideae) plants: comparative and phylogenetic analyses provide insights into the plastome evolution and taxonomy of LibanotisLi-Jia Liu0Chang-Kun Liu1Jing Cai2Jiao-Jiao Deng3Xing‑Jin He4Song‑Dong Zhou5Key Laboratory of Bio‑Resources and Eco‑Environment of Ministry of Education, College of Life Sciences, Sichuan UniversityKey Laboratory of Bio‑Resources and Eco‑Environment of Ministry of Education, College of Life Sciences, Sichuan UniversityKey Laboratory of Bio‑Resources and Eco‑Environment of Ministry of Education, College of Life Sciences, Sichuan UniversityKey Laboratory of Bio‑Resources and Eco‑Environment of Ministry of Education, College of Life Sciences, Sichuan UniversityKey Laboratory of Bio‑Resources and Eco‑Environment of Ministry of Education, College of Life Sciences, Sichuan UniversityKey Laboratory of Bio‑Resources and Eco‑Environment of Ministry of Education, College of Life Sciences, Sichuan UniversityAbstract Background The genus Libanotis Haller ex Zinn, nom. cons., a contentious member of Apiaceae, encompasses numerous economically and medicinally significant plants, comprising approximately 30 species distributed across Eurasia. Despite many previous taxonomic insights into it, phylogenetic studies of the genus are still lacking. And the establishment of a robust phylogenetic framework remains elusive, impeding advancements and revisions in the taxonomic system for this genus. Plastomes with greater variability in their genetic characteristics hold promise for building a more robust Libanotis phylogeny. Results During our research, we sequenced, assembled, and annotated complete plastomes for twelve Libanotis species belong to three sections and two closely related taxa. We conducted a comprehensive comparative analysis through totally thirteen Libanotis plastomes for the genus, including an additional plastome that had been published. Our results suggested that Libanotis plastome was highly conserved between different subclades, while the coding regions were more conserved than the non-coding regions, and the IR regions were more conserved than the single copy regions. Nevertheless, eight mutation hotspot regions were identified among plastomes, which can be considered as candidate DNA barcodes for accurate species identification in Libanotis. The phylogenetic analyses generated a robustly framework for Libanotis and revealed that Libanotis was not a monophyletic group and their all three sections were polygenetic. Libanotis schrenkiana was sister to L. sibirica, type species of this genus, but the remainders scattered within Selineae. Conclusion The plastomes of Libanotis exhibited a high degree of conservation and was effective in enhancing the support and resolution of phylogenetic analyses within this genus. Based on evidence from both phylogeny and morphology, we propose the recognition of "Libanotis sensu stricto" and provide taxonomic recommendations for other taxa that previously belonged to Libanotis. In conclusion, our study not only revealed the phylogenetic position and plastid evolution of Libanotis, but also provided new insights into the phylogeny of the family Apiaceae and phylogenetic relationships within the tribe Selineae.https://doi.org/10.1186/s12870-024-04784-4ApiaceaeLibanotisPlastomePhylogenyTaxonomy |
| spellingShingle | Li-Jia Liu Chang-Kun Liu Jing Cai Jiao-Jiao Deng Xing‑Jin He Song‑Dong Zhou The complete plastomes of thirteen Libanotis (Apiaceae, Apioideae) plants: comparative and phylogenetic analyses provide insights into the plastome evolution and taxonomy of Libanotis BMC Plant Biology Apiaceae Libanotis Plastome Phylogeny Taxonomy |
| title | The complete plastomes of thirteen Libanotis (Apiaceae, Apioideae) plants: comparative and phylogenetic analyses provide insights into the plastome evolution and taxonomy of Libanotis |
| title_full | The complete plastomes of thirteen Libanotis (Apiaceae, Apioideae) plants: comparative and phylogenetic analyses provide insights into the plastome evolution and taxonomy of Libanotis |
| title_fullStr | The complete plastomes of thirteen Libanotis (Apiaceae, Apioideae) plants: comparative and phylogenetic analyses provide insights into the plastome evolution and taxonomy of Libanotis |
| title_full_unstemmed | The complete plastomes of thirteen Libanotis (Apiaceae, Apioideae) plants: comparative and phylogenetic analyses provide insights into the plastome evolution and taxonomy of Libanotis |
| title_short | The complete plastomes of thirteen Libanotis (Apiaceae, Apioideae) plants: comparative and phylogenetic analyses provide insights into the plastome evolution and taxonomy of Libanotis |
| title_sort | complete plastomes of thirteen libanotis apiaceae apioideae plants comparative and phylogenetic analyses provide insights into the plastome evolution and taxonomy of libanotis |
| topic | Apiaceae Libanotis Plastome Phylogeny Taxonomy |
| url | https://doi.org/10.1186/s12870-024-04784-4 |
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