Molecular Systematics & Evolution of Microorganisms

Table of Contents

1. Molecular Systematics & Evolution of Microorganisms Instituto Oswaldo Cruz, FIOCRUZ Rio de Janeiro, Brazil September 1999
2. Introduction to the course
3. Aims of the course:
4. Systematics is...
5. Systematics comprises:
6. Phenetic Classification:
7. Phylogenetic classification (cladistics):
8. Cladograms and phylograms
9. Rooting using outgroups
10. Why construct a classification for Microorganisms? 
11. Time line for life based on fossil evidence 
12. How to construct a classification system for Microorganisms? 
13. Owen’s definition of homology
14. Darwin and homology
15. Homology is...
16. Phylogenetic systematics
17. Monophyletic groups
18. Some premises underlying phylogenetic inferences
19. Phylogenetic analysis requires careful thought
20. Phylogenetic analysis is an attempt to infer the past
21. Molecules as documents of evolutionary history
22. What sequences should we use?
23. Exploring patterns in sequence data:
24. Saturation in sequence data:
25. Multiple changes at a single site 
26. What is the First Branch in the Eukaryote Tree? - Microsporidia?
27. Elongation factor EF-1 alpha maximum likelihood tree for a selection of eukaryotes
28. Conflicting phylogenies for Microsporidia?
29. Microsporidia have a number of unusual features
30. Alternative explanations of Microsporidia unusual features
31. Some inventions in eukaryote evolution?
32. Elongation factor EF-1 alpha maximum likelihood tree for a selection of eukaryotes
33. Saturation curve for EF-1 alpha among Eukaryotes 
34. Elongation factor EF-1 alpha maximum likelihood tree for a selection of eukaryotes
35. Saturation curve for EF-1 alpha among Eukaryotes 
36. Elongation factor EF-1 alpha maximum likelihood tree for a selection of eukaryotes 
37. Amino acid ML tree for the largest subunit of RNA Polymerase II 
38. Plots for pairwise transitions versus transversions for EF-1 alpha 
39. An appropriate method can correct for GC bias. 
40. Amino acid ML tree for the largest subunit of RNA Polymerase II 
41. Plots for pairwise transitions versus transversions for RNA Polymerase 
42. LogDet from variable sites (DNA positions 1+2) for RNA Polymerase 
43. Some inventions in eukaryote evolution?
44. Biased base compositions?
45. Percentage GC in 16S rRNA genes 
46. An appropriate method can correct for GC bias 
47. Phylogenetic estimates are premised on: 
48. Orthology: Gene trees and species trees 
49. Paralogy can produce misleading trees 
50. The Malic Enzyme tree containing paralogs 
51. Ancient Duplications can be used to root the tree of life 
52. The Universal RNA Tree

Email: tme@nhm.ac.uk

Home Page: http://www.nhm.ac.uk/zoology/home/embley.htm