Successfully reported this slideshow.
We use your LinkedIn profile and activity data to personalize ads and to show you more relevant ads. You can change your ad preferences anytime.
A probabilistically time-scaled 1,000- 
taxon phylogenetic hypothesis for 
Mesozoic dinosaurs and the origins 
of flight a...
When? 
1. Dinosaurs 
2. Flight 
3. Crown birds
Simultaneous inference 
Lee et al 2014
A posteriori time-scaling 
paleotree 
strap
A posteriori time-scaling 
+ 
paleotree 
strap
A posteriori time-scaling 
+ = 
paleotree 
strap
A posteriori time-scaling 
Arbitrary 
Arbitrary addition(s) 
Derstler 1982 
Minimum branch-length 
Laurin 2004 
Branch-sha...
A posteriori time-scaling 
Arbitrary Probabilistic 
cal3 
Bapst 2013 
Nowak 
Nowak et al 2013 
Hedman method 
Lloyd and Fr...
A posteriori time-scaling 
Arbitrary Probabilistic 
cal3 
Bapst 2013 
Hedman method 
Lloyd and Friedman in prep
cal3 method 
* 
* 
* 
* 
* * 
* 
* 
* 
* 
Bapst 2013
cal3 method 
* 
* 
* 
* 
* * 
* 
* 
* 
* 
Bapst 2013
cal3 method 
* 
* 
* 
* 
* * 
* 
* 
* 
* 
Bapst 2013
cal3 method 
* 
* 
* 
* 
* * 
* 
* 
* 
* 
Bapst 2013
Hedman method 
Target node Outgroup taxon 
TIME 
Hedman 2010; Lloyd and Friedman in prep
Hedman method 
Target node Outgroup taxon 
TIME 
Hedman 2010; Lloyd and Friedman in prep
Phylogenetic approach 
Pisani et al. 2002 Lloyd et al. 2008
Pipeline 
Collect 
data 
graemetlloyd.com
Pipeline 
Collect 
data 
Reconcile 
taxonomy
Pipeline 
Collect 
data 
Reconcile 
taxonomy 
Define 
cutoff
Pipeline 
Collect 
data 
Reconcile 
taxonomy 
Define 
cutoff 
Consensus 
vs. MPTs
Pipeline 
Taxonomy 
tree 
ABCDEFGHIJKL 
Class Order Family Genus
Pipeline 
Taxonomy 
tree 
Safe Taxon. 
Reduction 
github.com/graemetlloyd/Claddis 
Wilkinson 1995
Taxonomy 
tree 
Safe Taxon. 
Reduction 
Weights 
Pipeline
Taxonomy 
tree 
Safe Taxon. 
Reduction 
Weights Inference 
Pipeline
Taxonomy 
tree 
Safe Taxon. 
Reduction 
Weights Inference 
Pipeline
Results 
Hedman cal3
Dinosauria 
Hedman cal3
Dinosauria 
2.6% 
9.6% 
Hedman cal3
Dinosauria 
0.2% 
1.0% 
Hedman cal3 
-
Aves 
Hedman cal3
Aves 
Hedman cal3
Crown birds 
Hedman cal3
Crown birds 
cal3 
Hedman 
95% HPD
Crown birds 
cal3 
Hedman 
Molecular Clock 
95% HPD
Crown birds 
cal3 
Hedman 
Molecular Clock 
95% HPD 
Morphological Clock
Conclusions 
Hedman 
cal3
Conclusions 
Hedman 
cal3
Conclusions 
Hedman 
cal3
Conclusions 
Hedman 
cal3
Upcoming SlideShare
Loading in …5
×

A probabilistically time-scaled 1,000-taxon phylogenetic hypothesis for Mesozoic dinosaurs and the origins of flight and crown-birds

762 views

Published on

Published in: Science
  • Be the first to comment

  • Be the first to like this

A probabilistically time-scaled 1,000-taxon phylogenetic hypothesis for Mesozoic dinosaurs and the origins of flight and crown-birds

  1. 1. A probabilistically time-scaled 1,000- taxon phylogenetic hypothesis for Mesozoic dinosaurs and the origins of flight and crown-birds Graeme T. Lloyd David W. Bapst @GraemeTLloyd @dwbapst Katie E. Davis Matt Friedman @drkatiedavis @Friedman_Lab
  2. 2. When? 1. Dinosaurs 2. Flight 3. Crown birds
  3. 3. Simultaneous inference Lee et al 2014
  4. 4. A posteriori time-scaling paleotree strap
  5. 5. A posteriori time-scaling + paleotree strap
  6. 6. A posteriori time-scaling + = paleotree strap
  7. 7. A posteriori time-scaling Arbitrary Arbitrary addition(s) Derstler 1982 Minimum branch-length Laurin 2004 Branch-sharing Ruta et al 2006; Brusatte et al 2008
  8. 8. A posteriori time-scaling Arbitrary Probabilistic cal3 Bapst 2013 Nowak Nowak et al 2013 Hedman method Lloyd and Friedman in prep Arbitrary addition(s) Derstler 1982 Minimum branch-length Laurin 2004 Branch-sharing Ruta et al 2006; Brusatte et al 2008
  9. 9. A posteriori time-scaling Arbitrary Probabilistic cal3 Bapst 2013 Hedman method Lloyd and Friedman in prep
  10. 10. cal3 method * * * * * * * * * * Bapst 2013
  11. 11. cal3 method * * * * * * * * * * Bapst 2013
  12. 12. cal3 method * * * * * * * * * * Bapst 2013
  13. 13. cal3 method * * * * * * * * * * Bapst 2013
  14. 14. Hedman method Target node Outgroup taxon TIME Hedman 2010; Lloyd and Friedman in prep
  15. 15. Hedman method Target node Outgroup taxon TIME Hedman 2010; Lloyd and Friedman in prep
  16. 16. Phylogenetic approach Pisani et al. 2002 Lloyd et al. 2008
  17. 17. Pipeline Collect data graemetlloyd.com
  18. 18. Pipeline Collect data Reconcile taxonomy
  19. 19. Pipeline Collect data Reconcile taxonomy Define cutoff
  20. 20. Pipeline Collect data Reconcile taxonomy Define cutoff Consensus vs. MPTs
  21. 21. Pipeline Taxonomy tree ABCDEFGHIJKL Class Order Family Genus
  22. 22. Pipeline Taxonomy tree Safe Taxon. Reduction github.com/graemetlloyd/Claddis Wilkinson 1995
  23. 23. Taxonomy tree Safe Taxon. Reduction Weights Pipeline
  24. 24. Taxonomy tree Safe Taxon. Reduction Weights Inference Pipeline
  25. 25. Taxonomy tree Safe Taxon. Reduction Weights Inference Pipeline
  26. 26. Results Hedman cal3
  27. 27. Dinosauria Hedman cal3
  28. 28. Dinosauria 2.6% 9.6% Hedman cal3
  29. 29. Dinosauria 0.2% 1.0% Hedman cal3 -
  30. 30. Aves Hedman cal3
  31. 31. Aves Hedman cal3
  32. 32. Crown birds Hedman cal3
  33. 33. Crown birds cal3 Hedman 95% HPD
  34. 34. Crown birds cal3 Hedman Molecular Clock 95% HPD
  35. 35. Crown birds cal3 Hedman Molecular Clock 95% HPD Morphological Clock
  36. 36. Conclusions Hedman cal3
  37. 37. Conclusions Hedman cal3
  38. 38. Conclusions Hedman cal3
  39. 39. Conclusions Hedman cal3

×