Species Phylogeny versus Gene Trees: A Case Study of an Incongruent Data Matrix Based on Paphiopedilum Pfitz. (Orchidaceae) |
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| Authors: | Marcin Grniak Dariusz L Szlachetko Natalia Ol&#x;drzy&#x;ska Aleksandra M Naczk Agata Mieszkowska Lidia Boss Marek S Zi&#x;tara |
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| Affiliation: | 1.Department of Evolutionary Genetics and Biosystematics, University of Gdańsk, 80-309 Gdańsk, Poland; (A.M.N.); (A.M.); (M.S.Z.);2.Department of Plant Taxonomy and Nature Conservation, University of Gdańsk, 80-309 Gdańsk, Poland; (D.L.S.); (N.O.);3.Department of Bacterial Molecular Genetics, University of Gdańsk, 80-309 Gdańsk, Poland; |
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| Abstract: | The phylogeny of the genus Paphiopedilum based on the plastome is consistent with morphological analysis. However, to date, none of the analyzed nuclear markers has confirmed this. Topology incongruence among the trees of different nuclear markers concerns entire sections of the subgenus Paphiopedilum. The low-copy nuclear protein-coding gene PHYC was obtained for 22 species representing all sections and subgenera of Paphiopedilum. The nuclear-based phylogeny is supported by morphological characteristics and plastid data analysis. We assumed that an incongruence in nuclear gene trees is caused by ancestral homoploid hybridization. We present a model for inferring the phylogeny of the species despite the incongruence of the different tree topologies. Our analysis, based on six low-copy nuclear genes, is congruent with plastome phylogeny and has been confirmed by phylogenetic network analysis. |
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| Keywords: | homoploid hybridization nuclear genes concatenation molecular dating Orchidaceae Paphiopedilum |
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