Data for: Phylogenomic analyses of the Neotropical Artocarpeae (Moraceae) reveal a history of introgression and support the reinstatement of Acanthinophyllum

This molecular study of the Neotropical Artocarpeae, the closest living allies of the Asia-Pacific breadfruit genus, uses phylogenetic and network analyses to untangle the evolutionary history of this difficult group. Results paint a picture of a rapid radiation, with introgression between sympatric species confounding attempts to reconstruct a well-supported bifurcating tree. While bifurcating trees were markedly at odds with morphology, multifurcating phylogenetic network analyses recovered multiple histories, with clearer traces of morphological alliances. The sole unambiguous finding is the sister relationship between Clarisia sect. Acanthinophyllum and the rest of the Neotropical Artocarpeae; as a result, the genus Acanthinophyllum is reinstated., DNA sequences were assembled with HybPiper 2.0
Gene trees were inferred with IQtree 2.0
Species trees were inferred with ASTRAL
Networks were inferred with PhyloNet, All file within the .zip archive are plain text. DNA sequences are in FASTA format, trees are in Newick format, and networks are in Rich Newick format.