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Introduction
Methods
Results
Discussion
Lepidoptera phylogeny
more genes? more taxa? better models?
Introduction
Methods
Results
Discussion
lots of data?
more genes? more taxa? better models?
Introduction
Methods
Results
Discussion
more taxa?
Hillis et al. (1998, 2003) - limited amount of time and money for data assembly - phylogenetic estimates improve with more taxa even if # of characters remains unchanged
X2
Introduction
Methods
Results
Discussion
more taxa?
Hillis et al. (1998, 2003) - limited amount of time and money for data assembly - phylogenetic estimates improve with more taxa even if # of characters remains unchanged
X2
Introduction
Methods
Results
Discussion
Introduction
Methods
Results
Discussion
Introduction
Methods
Results
Discussion
empirical sequences
Bombycidae Drepanidae Geometridae Hedylidae
Hesperiidae
Lasiocampidae Megalopygidae
Mimallonidae
Noctuidae
Notodontidae
Nymphalidae
Papilionidae
97
Pieridae Saturniidae Sphingidae Uraniidae
5 sampling levels (species per family): - 100 - 200 - 300 - 400 - 500 Cytochrome c oxidase I (650bp)
Introduction
Methods
Results
Discussion
simulated sequences
- simulated along NJ tree of empirical sequences - constrained families as clades, and deeper phylogeny of Pogue (2009) X1 X2 X4
2 sampling levels: - 1000 species (~80 species per family) - 150 species (~10 species per family)
Introduction
Methods
Results
Discussion
phylogenetic analysis
- maximum parsimony analysis using TNT - tree and character scores measured in PAUP
Introduction
Methods
Results
Discussion
evaluating phylogenies
concordance groups - 16 families
1. Proportion of monophyletic taxa # of monophyletic taxa/number of taxa 2. Taxon consistency index = m/s m = minimum # of clades a taxon can exhibit on any cladogram s = minimum # of clades a taxon exhibits on actual cladogram 3. Taxon retention index = (g-s)/(g-m) g = greatest # of clades a taxon can exhibit on any cladogram
Introduction
Methods
Results
Discussion
Introduction
Methods
Results
Discussion
Homoplasy measures CI RI 1139 1139 0.024, 0.024 0.498, 0.501 3958 3958 0.010, 0.010 0.500, 0.580
Introduction
Methods
Results
Discussion
Homoplasy measures CI RI 1139 1139 0.024, 0.024 0.498, 0.501 3958 3958 0.010, 0.010 0.500, 0.580
Introduction
Methods
Results
Discussion
Introduction
Methods
Results
Discussion
results summary
(i) increasing taxon number in empirical datasets - doesnt increase # monophyletic families - doesnt break long branches - adds homoplasy to the dataset (ii) increasing tree-like shape in simulated datasets - does increase # monophyletic families - but not substantially - increased taxon sampling doesnt help
Introduction
Methods
Results
Discussion
improving phylogenies
Introduction
Methods
Results
Discussion
improving phylogenies
more genes? may not help
- Regier et als 5 genes generally recovered families - other studies show varying success (wg, Ef-1a, period) - few exemplars increase the a priori probability of species appearing together
Introduction
Methods
Results
Discussion
improving phylogenies
more genes? may not help more taxa? may not help
- sequence information to increase taxon sampling for other genes is non-existent - additional taxon sampling must improve the stability of the classification?
Introduction
Methods
Results
Discussion
improving phylogenies
more genes? may not help more taxa? may not help better models? may not help
- unfeasible in terms of computer time - global parsimony still represents the boldest test of monophyly (Goloboff et al. 2009) - do we really know how molecules evolve?
Introduction
Methods
Results
Discussion
improving phylogenies
more genes? may not help more taxa? may not help better models? may not help
Introduction
Methods
Results
Discussion
improving phylogenies
The recovery of short internodes is likely to vary even with small perturbations of gene choice, taxon sampling and analytical assumptions
Introduction
Methods
Results
Discussion
improving phylogenies
The recovery of short internodes is likely to vary even with small perturbations of gene choice, taxon sampling and analytical assumptions
Increased taxon sampling with short molecular sequences - does it support or collapse deep monophyly?
Acknowledgments
Study design
Paul Hebert, Bob Hanner, Joo Lima
Thank you!
Introduction
Methods
Results
Discussion
3 genes
EF-1a
300
2 genes
150
wingless
1 gene
0 25
COI
50 75 25
# of Taxa
# of Taxa
50
75
Nymphalidae