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African Mountain Thistles: Three New Genera in the Carduus-Cirsium Group
The floras on the highest mountains in tropical eastern Africa are among the most unique floras in the world. Despite the exceptionally high concentration of endemic species, these floras remain understudied from an evolutionary point of view. In this study, we focus on the Carduus-Cirsium group (su...
Autores principales: | , , , , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10489743/ https://www.ncbi.nlm.nih.gov/pubmed/37687332 http://dx.doi.org/10.3390/plants12173083 |
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author | Moreyra, Lucía D. Garcia-Jacas, Núria Roquet, Cristina Ackerfield, Jennifer R. Arabacı, Turan Blanco-Gavaldà, Carme Brochmann, Christian Calleja, Juan Antonio Dirmenci, Tuncay Fujikawa, Kazumi Galbany-Casals, Mercè Gao, Tiangang Gizaw, Abel López-Alvarado, Javier Mehregan, Iraj Vilatersana, Roser Yıldız, Bayram Leliaert, Frederik Seregin, Alexey P. Susanna, Alfonso |
author_facet | Moreyra, Lucía D. Garcia-Jacas, Núria Roquet, Cristina Ackerfield, Jennifer R. Arabacı, Turan Blanco-Gavaldà, Carme Brochmann, Christian Calleja, Juan Antonio Dirmenci, Tuncay Fujikawa, Kazumi Galbany-Casals, Mercè Gao, Tiangang Gizaw, Abel López-Alvarado, Javier Mehregan, Iraj Vilatersana, Roser Yıldız, Bayram Leliaert, Frederik Seregin, Alexey P. Susanna, Alfonso |
author_sort | Moreyra, Lucía D. |
collection | PubMed |
description | The floras on the highest mountains in tropical eastern Africa are among the most unique floras in the world. Despite the exceptionally high concentration of endemic species, these floras remain understudied from an evolutionary point of view. In this study, we focus on the Carduus-Cirsium group (subtribe Carduinae) to unravel the evolutionary relationships of the species endemic to the tropical Afromontane and Afroalpine floras, aiming to improve the systematics of the group. We applied the Hyb-Seq approach using the Compositae1061 probe set on 190 samples (159 species), encompassing representatives of all genera of Carduinae. We used two recently developed pipelines that enabled the processing of raw sequence reads, identification of paralogous sequences and segregation into orthologous alignments. After the implementation of a missing data filter, we retained sequences from 986 nuclear loci and 177 plastid regions. Phylogenomic analyses were conducted using both concatenated and summary-coalescence methods. The resulting phylogenies were highly resolved and revealed three distinct evolutionary lineages consisting of the African species traditionally referred to as Carduus and Cirsium. Consequently, we propose the three new genera Afrocarduus, Afrocirsium and Nuriaea; the latter did notably not belong to the Carduus-Cirsium group. We detected some incongruences between the phylogenies based on concatenation vs. coalescence and on nuclear vs. plastid datasets, likely attributable to incomplete lineage sorting and/or hybridization. |
format | Online Article Text |
id | pubmed-10489743 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-104897432023-09-09 African Mountain Thistles: Three New Genera in the Carduus-Cirsium Group Moreyra, Lucía D. Garcia-Jacas, Núria Roquet, Cristina Ackerfield, Jennifer R. Arabacı, Turan Blanco-Gavaldà, Carme Brochmann, Christian Calleja, Juan Antonio Dirmenci, Tuncay Fujikawa, Kazumi Galbany-Casals, Mercè Gao, Tiangang Gizaw, Abel López-Alvarado, Javier Mehregan, Iraj Vilatersana, Roser Yıldız, Bayram Leliaert, Frederik Seregin, Alexey P. Susanna, Alfonso Plants (Basel) Article The floras on the highest mountains in tropical eastern Africa are among the most unique floras in the world. Despite the exceptionally high concentration of endemic species, these floras remain understudied from an evolutionary point of view. In this study, we focus on the Carduus-Cirsium group (subtribe Carduinae) to unravel the evolutionary relationships of the species endemic to the tropical Afromontane and Afroalpine floras, aiming to improve the systematics of the group. We applied the Hyb-Seq approach using the Compositae1061 probe set on 190 samples (159 species), encompassing representatives of all genera of Carduinae. We used two recently developed pipelines that enabled the processing of raw sequence reads, identification of paralogous sequences and segregation into orthologous alignments. After the implementation of a missing data filter, we retained sequences from 986 nuclear loci and 177 plastid regions. Phylogenomic analyses were conducted using both concatenated and summary-coalescence methods. The resulting phylogenies were highly resolved and revealed three distinct evolutionary lineages consisting of the African species traditionally referred to as Carduus and Cirsium. Consequently, we propose the three new genera Afrocarduus, Afrocirsium and Nuriaea; the latter did notably not belong to the Carduus-Cirsium group. We detected some incongruences between the phylogenies based on concatenation vs. coalescence and on nuclear vs. plastid datasets, likely attributable to incomplete lineage sorting and/or hybridization. MDPI 2023-08-28 /pmc/articles/PMC10489743/ /pubmed/37687332 http://dx.doi.org/10.3390/plants12173083 Text en © 2023 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Article Moreyra, Lucía D. Garcia-Jacas, Núria Roquet, Cristina Ackerfield, Jennifer R. Arabacı, Turan Blanco-Gavaldà, Carme Brochmann, Christian Calleja, Juan Antonio Dirmenci, Tuncay Fujikawa, Kazumi Galbany-Casals, Mercè Gao, Tiangang Gizaw, Abel López-Alvarado, Javier Mehregan, Iraj Vilatersana, Roser Yıldız, Bayram Leliaert, Frederik Seregin, Alexey P. Susanna, Alfonso African Mountain Thistles: Three New Genera in the Carduus-Cirsium Group |
title | African Mountain Thistles: Three New Genera in the Carduus-Cirsium Group |
title_full | African Mountain Thistles: Three New Genera in the Carduus-Cirsium Group |
title_fullStr | African Mountain Thistles: Three New Genera in the Carduus-Cirsium Group |
title_full_unstemmed | African Mountain Thistles: Three New Genera in the Carduus-Cirsium Group |
title_short | African Mountain Thistles: Three New Genera in the Carduus-Cirsium Group |
title_sort | african mountain thistles: three new genera in the carduus-cirsium group |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10489743/ https://www.ncbi.nlm.nih.gov/pubmed/37687332 http://dx.doi.org/10.3390/plants12173083 |
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