Phylogenomics of Salvia L. subgenus Calosphace (Lamiaceae)

21 de septiembre de 2021

Les invitamos a leer el artículo de la Dra. Angélica Cibrián Jaramillo: "Phylogenomics of Salvia L. subgenus Calosphace (Lamiaceae)" Les invitamos a leer el artículo "Phylogenomics of Salvia L. subgenus Calosphace (Lamiaceae)" de la Dra. Angélica Cibrián Jaramillo investigadora de la UGA-Langebio.

Autores:  Sabina Irene Lara-Cabrera¹, Maria de la Luz Perez-Garcia², Carlos Alonso Maya-Lastra³, Juan Carlos Montero-Castro¹, Grant T. Godden⁴, Angelica Cibrian-Jaramillo⁵, Amanda E. Fisher⁶ and J. Mark Porter⁷.

1. Laboratorio de Sistemática Molecular de Plantas, Facultad de Biología, Universidad Michoacana de San Nicolás de Hidalgo, Morelia, Mexico
2. Departamento de Botánica y Zoología, Centro Universitario de Ciencias Biológicas y Agropecuarias, Universidad de Guadalajara, Guadalajara, Mexico
3. Department of Ecology, Evolution, and Environmental Biology, Columbia University, New York, NY, United States
4. Florida Museum of Natural History, University of Florida, Gainesville, FL, United States
5. Laboratorio Nacional de Genómica para la Biodiversidad, Unidad de Genómica Avanzada del Centro de Investigación y de Estudios Avanzados del instituto Politécnico Nacional, Irapuato, Mexico
6. Department of Biological Sciences, California State University, Long Beach, CA, United States
7. California Botanic Garden, Claremont, CA, United States

Felicitamos al estudiantado y profesorado que contribuyeron en esta investigación por su arduo trabajo.

Abstract: The evolutionary relationships of Salvia have been difficult to estimate. In this study, we used the Next Generation Sequencing method Hyb-Seq to evaluate relationships among 90 Lamiaceae samples, including representatives of Mentheae, Ocimeae, Salvia subgenera Audibertia, Leonia, Salvia, and 69 species of subgenus Calosphace, representing 32 of Epling's sections. A bait set was designed in MarkerMiner using available transcriptome data to enrich 119 variable nuclear loci. Nuclear and chloroplast loci were assembled with hybphylomaker (HPM), followed by coalescent approach analyses for nuclear data (ASTRAL, BEAST) and a concatenated Maximum Likelihood analysis of chloroplast loci. The HPM assembly had an average of 1,314,368 mapped reads for the sample and 527 putative exons. Phylogenetic inferences resolved strongly supported relationships for the deep-level nodes, agreeing with previous hypotheses which assumed that subgenus Audibertia is sister to subgenus Calosphace. Within subgenus Calosphace, we recovered eight monophyletic sections sensu Epling, Cardinalis, Hastatae, Incarnatae, and Uricae in all the analyses (nDNA and cpDNA), Biflorae, Lavanduloideae, and Sigmoideae in nuclear analyses (ASTRAL, BEAST) and Curtiflorae in ASTRAL trees. Network analysis supports deep node relationships, some of the main clades, and recovers reticulation within the core Calosphace. The chloroplast phylogeny resolved deep nodes and four monophyletic Calosphace sections. Placement of S. axillaris is distinct in nuclear evidence and chloroplast, as sister to the rest of the S. subg. Calosphace in chloroplast and a clade with “Hastatae clade” sister to the rest of the subgenus in nuclear evidence. We also tested the monophyly of S. hispanica, S. polystachia, S. purpurea, and S. tiliifolia, including two samples of each, and found that S. hispanica and S. purpurea are monophyletic. Our baits can be used in future studies of Lamiaceae phylogeny to estimate relationships between genera and among species. In this study, we presented a Hyb-Seq phylogeny for complex, recently diverged Salvia, which could be implemented in other Lamiaceae.

Keywords: Hyb-Seq, chloroplast, section, nuclear, monophyly.