Incomplete lineage sorting and reticulate evolution mask the phylogenetic relationships in Brunelliaceae, an Andean family with rapid diversification
Brunelliaceae is composed of only one genus (Brunellia) that has more than 60 species. The phylogenetic relationships within Brunellia previously explored using morphological characters do not correspond with the ones found using traditional molecular markers. To solve this discrepancy, we explored more than 300 nuclear genes captured with the Angiosperm 353 bait kit and we used them to reconstruct the evolutionary history of the genus.
This data set contains the matrices used in the phylogenetic analyses. The genes are named using the numbers assigned in the Angiosperm 353 kit.
- Exons_aligned: Exonic regions (FNA files) aligned with MAFFT
- Exons_aligned_trimmed_ParalogsRemoved: Exonic regions (FNA files) aligned with MAFFT and trimmed with TrimAL. Twenty-seven paralogs were excluded.
- Supercontigs_aligned: Exonic regions+introns+flanking regions aligned with MAFFT
- Supercontigs_aligned_trimmed_ParalogsRemoved: Exonic regions+introns+flanking aligned with MAFFT and trimmed with TrimAL. Twenty-seven paralogs were excluded.
Brunellia, Coalescence, Phylogenetic signal, Reticulate evolution, target enrichment