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Slide #1. Genomes and Phylogeny <BR> Slide #2. Comparative Genomics Slide #3. Comparative Genomics Slide #4. Slide 4 Slide #5. Automation has increased efficiency Slide #6. Monthly Q20 Bases <BR>JGI Slide #7. Initial Genomes Sequenced Slide #8. Genome Slide #9. Comparative Genomics Slide #10. Bilateria Slide #11. fruitfly Slide #12. Many New Genomes are Being Sequenced Slide #13. Sponges Slide #14. Sponges Slide #15. Ctenophores? Slide #16. Ctenophores? Slide #17. Eukaryotic Tree <BR>from partial genomic data Slide #18. Eukaryotic Tree Slide #19. Comparative Genomics Slide #20. Eukaryotic phylogenomics Slide #21. placozoans Slide #22. Single Copy Universal Gene Set SCUGS Slide #23. Other Universal Gene Sets Slide #24. Data Slide #25. Slide 25 Slide #26. C. elegans Slide #27. PhIGs: Phylogenetically Inferred Groups Slide #28. PhIGs: Flowchart Slide #29. PhIGs - Interface Slide #30. Summary Slide #31. Comparative Genomics Slide #32. Eukaryotic phylogenomics Slide #33. Eukaryotic Tree Slide #34. Ambrust et al (2004) Science 306:79-86 Slide #35. Data Slide #36. Cyanobacteria Slide #37. Other eukaryotes <BR>Plastids <BR>Cyanobacteria Slide #38. Summary Slide #39. Comparative Genomics Slide #40. Prokaryotic Comparative Genomics Slide #41. Helicobacter <BR>pylori Slide #42. The abundance of bacterial genomes allows for: Slide #43. Substitution rate and genome size may covary as to maintain a similar genome-wide substitution rate across microbes and avoid mutational load (Drake’s rule) Slide #44. 500 changes Slide #45. Slide 45 Slide #46. Slide 46 Slide #47. Comparative Genomics Slide #48. Comparative Genomics is a mature field <BR> Slide #49. Systems Biology Slide #50. Slide 50 Slide #51. How does Systems Biology work? Slide #52. Comparative transcriptomics Slide #53. Reviewed in Zhou & Gibson (2004) Genome Biology 5:232 Slide #54. Stuart et al. (2003) Science 302:249-255 Slide #55. Comparative transcriptomics & regulomics Slide #56. Comparative Proteomics Slide #57. Giot et al (2003) Science 302:1727-1736 Slide #58. Published interactomes Slide #59. Evolutionary Systems Biology <BR>Is there such a thing? Slide #60. Evolutionary Systems Biology Slide #61. Molecular evolution Slide #62. Evolutionary Systems Biology Slide #63. Slide 63 Slide #64. Organismal Biology Slide #65. "The 21st century is the century of <BR> Biology" Slide #66. "omics" Slide #67. Acknowledgments