Perianth evolution and implications for generic delimitation in the Eucalypts (Myrtaceae): DNA sequences, morphological data

Eucalyptus was traditionally defined by the operculate perianth—hence the generic name (Latin, meaning \"well-covered\"). But after previous phylogenetic analysis placed Angophora, which has free sepals and petals, as sister to the bloodwood eucalypts, the latter were segregated into a new genus, Corymbia. We made a targeted capture of 101 low-copy nuclear exons from 392 samples representing 329 species-level taxa. The phylogeny was estimated using maximum likelihood (IQtree and RAxML) and the multi-species coalescent (Astral). We tested alternative relationships between four genera within Eucalypteae (Arillastrum, Angophora, Eucalyptus, Corymbia) at each of two nodes critical to generic delimitation using Shimodaira's Approximately Unbiased (AU) test. Monophyly of Arillastrum + (Corymbia + Angophora) relative to Eucalyptus sensu stricto was supported whereas monophyly of Corymbia relative to Angophora was decisively rejected. These results indicate that either Eucalyptus should be expand..., This is an aligned dataset of 101 sequences of low copy nuclear loci by 392 species-level eucalypt taxa representing the phylogenetic diversity of Myrtaceae tribe Eucalypteae.
Sampling
Hereafter, the term \"Eucalypts s.l.\" refers collectively to Angophora, Corymbia and Eucalyptus. Sampling represented all genera within Myrtaceae tribe Eucalypteae sensu Wilson et al. (2005) except Allosyncarpia, Eucalyptopsis and Stockwellia. Within the eucalypts, both subgenera of Corymbia (Parra-O et al. 2009) and five of seven subgenera of Eucalyptus—except Acerosae (E. curtisii) and Alveolata (E. microcorys), both of which are monotypic—were sampled. There were 392 species-level taxa, including eleven outgroups, which were selected based on whole-of-family phylogenies by Wilson et al. (2005) and Thornhill et al. (2012; 2015) and included species of Osbornia and Melaleuca (Melaleuceae), Backhousia (Backhousieae), Tristaniopsis (Kanieae), Syncarpia (Syncarpieae) and Arillastrum (Eucalypteae). The tree w..., The DNA sequence data file <101 loci concatenation incl half plate 29 May.phy> is in Phylip format for input to  IQtree. The file <101concat-29May.nex.run1.best_scheme.nex> defines the partition boundaries (101 individual loci), as well as containing separate models for every locus, and is required for a multi-partition analysis in IQtree.
Morphological data were combined with the sequence data into another Nexus file for exploration of perianth evolution to address the question of generic definition in the eucalypts. Open with Mesquite.,