RESEARCH ARTICLE INVITED SPECIAL ARTICLE For the Special Issue: Exploring Angiosperms353: a Universal Toolkit for Flowering Plant Phylogenomics Reconstructing Dipsacales phylogeny using Angiosperms353: issues and insights Aaron K. Lee1,2,*, Ian S. Gilman3,*, Mansa Srivastav3, Ariel D. Lerner1, Michael J. Donoghue3, and Wendy L. Clement1,4 Manuscript received 25 October 2020; revision accepted 12 May 2021. PREMISE: Phylogenetic relationships within major angiosperm clades are increasingly well 1 Department of Biology, The College of New Jersey, Ewing, NJ 08628, resolved, but largely informed by plastid data. Areas of poor resolution persist within the USA Dipsacales, including placement of Heptacodium and Zabelia, and relationships within the 2 Department of Plant and Microbial Biology, University of Minnesota Caprifolieae and Linnaeeae, hindering our interpretation of morphological evolution. Here, - Twin Cities, Saint Paul, MN 55108, USA we sampled a significant number of nuclear loci using a Hyb- Seq approach and used these 3 Department of Ecology and Evolutionary Biology, Yale University, data to infer the Dipsacales phylogeny and estimate divergence times. New Haven, CT 06520, USA 4Author for correspondence (e-mail:
[email protected]) METHODS: Sampling all major clades within the Dipsacales, we applied the *Indicates equal authorship. Angiosperms353 probe set to 96 species. Data were filtered based on locus completeness Citation: Lee, A. K., I. S. Gilman, M. Srivastav, A. D. Lerner, M. J. and taxon recovery per locus, and trees were inferred using RAxML and ASTRAL. Plastid loci Donoghue, and W. L. Clement. 2021. Reconstructing Dipsacales phy- were assembled from off- target reads, and 10 fossils were used to calibrate dated trees. logeny using Angiosperms353: issues and insights.