Additional file 1 of Distinct hybridization modes in wide- and narrow-ranged lineages of Causonis (Vitaceae)

Additional file 1: Table S1. Information on distribution for species of Causonis involved in this study. Table S2. Detailed information on individuals of Causonis sequenced for whole genome sequencing (WGS) data and transcriptome data. Table S3. Sources of the whole genome sequencing (WGS) data and transcriptome data for outgroup species in phylogenetic analyses and divergence time estimation. Table S4. A summary of transcriptome sequencing. Table S5. A summary of transcriptome assembly. Table S6. Parsimony-informative sites of each ortholog alignment used for phylogeny reconstruction. Table S7. The datasets used in this study and the analyses conducted on the datasets. Table S8. D-statistic test results on quartets of the combinations of species from Parthenocissus, with P. speciosa as the outgroup. Table S9. P-values in likelihood ratio tests for determining the optimal number of mixing components. Table S10. The Ks peaks inferred as mixtures of normal distributions. Table S11. Gene duplications detected with a least common ancestor reconciliation method on standard species tree using Tree2GD, showing gene duplication type. Table S12. Reconciliation scores of multi-labeled or single-labeled tree candidates. Table S13. Results of model test in BioGeoBEARS, based on the maximum likelihood tree constructed with the 76taxa-79pd dataset and the multi-species tree constructed with the 76taxa-50nu dataset. Table S14. Distribution records of C. japonica and C. ciliifera used in MaxEnt species distribution modeling.