Hundreds of nuclear and plastid loci yield novel insights into orchid relationships.

Pérez-Escobar, Oscar Alejandro, Dodsworth, Steven, Bogarín, Diego, Bellot, Sidonie, Balbuena, Juan A, Schley, Rowan J, Kikuchi, Izai A, Morris, Sarah K, Epitawalage, Niroshini, Cowan, Robyn, Maurin, Olivier, Zuntini, Alexandre, Arias, Tatiana, Serna-Sánchez, Alejandra, Gravendeel, Barbara, Torres Jimenez, Maria Fernanda, Nargar, Katharina, Chomicki, Guillaume, Chase, Mark W, Leitch, Ilia J, Forest, Félix, Baker, William J (2021): Hundreds of nuclear and plastid loci yield novel insights into orchid relationships. American journal of botany 108 (7): 1166-1180, DOI: http://doi.org/10.5281/zenodo.7778176

Consistent phenological shifts in the making of a biodiversity hotspot: the Cape flora

Abstract Background The best documented survival responses of organisms to past climate change on short (glacial-interglacial) timescales are distributional shifts. Despite ample evidence on such timescales for local adaptations of populations at specific sites, the long-term impacts of such changes on evolutionary significant units in response to past climatic change have been little documented. Here we use phylogenies to reconstruct changes in distribution and flowering ecology of the Cape flora - South Africa's biodiversity hotspot - through a period of past (Neogene and Quaternary) changes in the seasonality of rainfall over a timescale of several million years. Results Forty-three dist…

Late Cretaceous-Early Eocene origin of yams (Dioscorea, Dioscoreaceae) in the Laurasian Palaearctic and their subsequent Oligocene-Miocene diversification

Aim: Dioscorea (Dioscoreaceae) is a predominantly pantropical genus (< 600 species) that includes the third most important tropical tuber crop and species of pharmacological value. Fossil records from both the Northern and Southern Hemispheres were used to test hypotheses about the origin of the genus Dioscorea, and to examine potential macroevolutionary processes that led to its current distribution. Location: Pantropical distribution. Methods: Divergence times were estimated using the most comprehensive phylogeny of the group published to date based on plastid sequences and fossil calibrations, applying a relaxed-clock model approach. Ancestral areas and range shifts were reconstructed us…

A nuclear Xdh phylogenetic analysis of yams (Dioscorea: Dioscoreaceae) congruent with plastid trees reveals a new Neotropical lineage

Hundreds of nuclear and plastid loci yield insights into orchid relationships

ABSTRACTPremise of the studyEvolutionary relationships in the species-rich Orchidaceae have historically relied on organellar DNA sequences and limited taxon sampling. Previous studies provided a robust plastid-maternal phylogenetic framework, from which multiple hypotheses on the drivers of orchid diversification have been derived. However, the extent to which the maternal evolutionary history of orchids is congruent with that of the nuclear genome has remained uninvestigated.MethodsWe inferred phylogenetic relationships from 294 low-copy nuclear genes sequenced/obtained using the Angiosperms353 universal probe set from 75 species representing 69 genera, 16 tribes and 24 subtribes. To test…