Species tree phylogenetics of a clade of Cuban Anoles

1. Species tree phylogenetics of a clade of Cuban Anoles Seth Rudman

2. Introduction to Anolis Anolis sagrei, one of Cuba's most common species; Anolis vermiculatus, an aquatic species from western Cuba; Anolis barbatus, a strange Cuban species that feeds on snails; Anolis allisoni, another Cuban species; Anolis bartschi, a spectacular rock-dweller that lacks a dewlap; Anolis distichus, from Hispaniola; Anolis aliniger, a montane species from Hispaniola (center).

3. Introduction to Anolis Anolis sagrei, one of Cuba's most common species; Anolis vermiculatus, an aquatic species from western Cuba; Anolis barbatus, a strange Cuban species that feeds on snails; Anolis allisoni, another Cuban species; Anolis bartschi, a spectacular rock-dweller that lacks a dewlap; Anolis distichus, from Hispaniola; Anolis aliniger, a montane species from Hispaniola (center).

4. Ecomorphs

5. Ecomorphs

6. Ecomorphs

7. Ecomorphs

8. Ecomorphs

9. Ecomorphs

10. Ecomorphs

11. Ecomorphs

12. Ecomorphs

13. Ecomorphs

14. Ecomorphs

17. Anolis sagrei

18. Phylogenetics basics: a quick review

19. Making a Gene Tree 1) Collect tissue 2) Extract DNA and Sequence 1 mtDNA marker and 2 common nDNA markers

20. 3) Align sequences and make a tree

21. Difficulties of Phylogenetics Conflicting gene histories Gene A reconstructs this topology Gene B reconstructs this topology

22. Difficulties of Phylogenetics Short distances between nodes

23. Problems encountered by my early trees…

24. Species Trees • Helpful to imagine a gene tree as a tree contained within the true phylogeny. • Think of a species tree as an aggregate of all gene trees.

25. What I’m doing now • Re-sample characters to form smaller datasets and determine the importance of sampling many nuclear loci.