1. iDigBio is funded by a grant from the National Science Foundation’s Advancing Digitization of Biodiversity Collections Program (Cooperative Agreement EF-1115210). Any opinions, findings, and conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation. All images used with permission or are free from copyright. Linking Diverse Data in Studies of Plant Evolution: Case Studies in Progress Pamela S. Soltis Florida Museum of Natural History University of Florida

2. 2 Collections: The Library of Life >1600 natural history collections in the US alone 1-2 billion specimens in the US 3-4 billion specimens worldwide

3. 3 Systematics and Taxonomy

4. 4

5. 5 Digitization Cyberinfrastructure Research Education & Outreach

6. 6 Research @ iDigBio Specimen portal Research applications and workflows

7. 7 Linking Collections to… Phylogeny Ecology Paleontology Living Collections Genomics Other Repositories

8. 8 Linking to Phylogeny

9. 9 Connecting Trees, Specimens, Tools, Data

10. 10 Connecting Trees, Specimens, Tools, Data C. Hinchliff

11. 11 Connecting Trees, Specimens, Tools, Data

12. 12 Links biodiversity data to trees Joe Miller & Garry Jolley-Rogers phylojive.ala.org.au/ A. buxifolia Source: Australian Plant Image Index Image by: Macdonald, C. PhyloJIVE

13. 13 PhyloJIVE instance in iDigBio A. Matsunaga http:phylojive.acis.ufl.edu/

14. 14 PhyloJIVE: user-specified trees A. Matsunaga

15. 15 PhyloJIVE: user-specified trees A. Matsunaga

16. 16 PhyloJIVE: preloaded subtrees from OpenTree A. Matsunaga

17. 17 PhyloJIVE: generates subtree from OpenTree based on specimen frequency in iDigBio A. Matsunaga

18. 18 PhyloJIVE: generates subtree from OpenTree based on specimen frequency in iDigBio A. Matsunaga

19. 19 https://github.com/arlin/sample_taxa/tree/master/arbor Arbor, OpenTree, and iDigBio https://arbor.kitware.com/ A. Matsunaga

20. 20

21. 21

22. 22 Using Specimen Images to Infer Functional Traits Evolution of plant functional traits Connect ecology & phylogeny

23. 23 Florida Plant Diversity in a Changing Climate Integrating herbarium specimen data, ENM, climate change models, and phylogeny Charlotte Germain-Aubrey The Florida Plant Phylogeny Includes: o 239 families (100% of FL) o 1336 genera (96% of FL) o 2587 species (63% of FL) The Florida Plant Phylogeny Includes: o 239 families (100% of FL) o 1336 genera (96% of FL) o 2587 species (63% of FL) The Florida Plant Phylogeny Includes: o 239 families (100% of FL) o 1336 genera (96% of FL) o 2587 species (63% of FL) Florida Plant Phylogeny Includes: 239 families (100% of FL) 1336 genera (96% of FL) 2587 species (63% of FL) Julie Allen, Kurt Neubig L. Majure, R. Abbott, R. Guralnick, J. M. Ponciano, D. Soltis, P. Soltis

24. 24 Florida Plant Diversity in a Changing Climate Integrating herbarium specimen data, ENM, climate change models, and phylogeny Charlotte Germain-Aubrey The Florida Plant Phylogeny Includes: o 239 families (100% of FL) o 1336 genera (96% of FL) o 2587 species (63% of FL) The Florida Plant Phylogeny Includes: o 239 families (100% of FL) o 1336 genera (96% of FL) o 2587 species (63% of FL) The Florida Plant Phylogeny Includes: o 239 families (100% of FL) o 1336 genera (96% of FL) o 2587 species (63% of FL) Florida Plant Phylogeny Includes: 239 families (100% of FL) 1336 genera (96% of FL) 2587 species (63% of FL) Julie Allen, Kurt Neubig L. Majure, R. Abbott, R. Guralnick, J. M. Ponciano, D. Soltis, P. Soltis

25. 25 now2050 now2050 Abildgaardia ovata (flatspike sedge) Prunus geniculata (scrub plum) Responses to Climate Change: past, present, future

26. 26 Florida plant diversity: now High species diversity Low species diversity

27. 27 Between now and 2050… # spp 2050 - #spp now Panhandle species moving NORTH! Peninsula species moving SOUTH!

28. 28 Florida Plant Diversity in a Changing Climate Phylogenetic diversity? Clustering of traits? Habitat response? Integrating herbarium specimen data, ENM, climate change models, and phylogeny

29. 29 Summary Many opportunities to link heterogeneous data to phylogenies across ToL Abundant data, new tools Challenges (names, identifiers, etc.) Data sharing, collaboration

30. iDigBio is funded by a grant from the National Science Foundation’s Advancing Digitization of Biodiversity Collections Program (Cooperative Agreement EF-1115210). Any opinions, findings, and conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation. All images used with permission or are free from copyright. www.idigbio.org facebook.com/iDigBio twitter.com/iDigBio vimeo.com/idigbio idigbio.org/rss-feed.xml webcal://www.idigbio.org/events-calendar/export.ics Acknowledgments Collaborators at iDigBio: J. Fortes, A. Matsunaga, C. Germain-Aubrey, K. Neubig J. Allen, R. Guralnick, D. Soltis PhyloJIVE: J. Miller Open Tree of Life: D. Soltis, S. Smith, C. Hinchliff Arbor: L. Harmon, C. Lisle Lifemapper: J. Beach Dimensions: D. Soltis, J. Lichstein, M. Mack, J. Xiang, C. Fu, Z. Chen

31. iDigBio is funded by a grant from the National Science Foundation’s Advancing Digitization of Biodiversity Collections Program (Cooperative Agreement EF-1115210). Any opinions, findings, and conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation. All images used with permission or are free from copyright. www.idigbio.org facebook.com/iDigBio twitter.com/iDigBio vimeo.com/idigbio idigbio.org/rss-feed.xml webcal://www.idigbio.org/events-calendar/export.ics Thank you! psoltis@flmnh.ufl.edu