Data from: Diversification of Hawaiian Cyrtandra (Gesneriaceae) under the influence of incomplete lineage sorting and hybridization

Cyrtandra (Gesneriaceae) is a genus of flowering plants with over 800
species distributed throughout Southeast Asia and the Pacific Islands. On
the Hawaiian Islands, 60 named species and over 89 putative hybrids exist,
most of which are identified on the basis of morphology. Despite many
previous studies on the Hawaiian Cyrtandra lineage, questions regarding
the reconciliation of morphology and genetics remain, many of which can be
attributed to the relatively young age and evidence of hybridization
between species. We utilized targeted enrichment, high-throughput
sequencing, and modern phylogenomics tools to test 33 Hawaiian Cyrtandra
samples for species relationships and hybridization in the presence of
incomplete lineage sorting (ILS). Both concatenated and species-tree
methods were used to reconstruct species relationships, and network
analyses were conducted to test for hybridization. We expected to see high
levels of ILS and putative hybrids intermediate to their parent species.
Phylogenies reconstructed from the concatenated and species-tree methods
were highly incongruent, most likely due to high levels of incomplete
lineage sorting. Network analyses inferred gene flow within this lineage,
but not always between taxa that we expected. Multiple hybridizations were
inferred, but many were on deeper branches of the island lineages
suggesting a long history of hybridization. We demonstrated the utility of
high-throughput sequencing and a phylogenomic approach to understanding
species relationships and gene flow in the presence of ILS.