Contents -- Contributors -- Introduction -- I. GENERAL CONCEPTS OF MICROBIAL EVOLUTION -- 1. Part I Overview -- 2. Studying Evolution Using Genome Sequence Data -- 3. Population Dynamics of Bacterial Pathogens -- 4. The Study of Microbial Adaptation by Long-Term Experimental Evolution -- 5. The Contribution of Pathogenicity Islands to the Evolution of Bacterial Pathogens -- 6. Black Holes and Antivirulence Genes: Selection for Gene Loss as Part of the Evolution of Bacterial Pathogens -- II. ENVIRONMENT AND THE EVOLUTION OF MICROBIAL PATHOGENS -- 7. Part II Overview -- 8. Evolution of Pathogens in Soil -- 9. Experimental Models of Symbiotic Host-Microbial Relationships: Understanding the Underpinnings of Beneficence and the Origins of Pathogenesis -- 10. The Evolution of Bacterial Toxins -- 11. Function, Evolution, and Classification of Macromolecular Transport Systems -- 12. The Evolution of Antibiotic Resistance -- III. EVOLUTION OF SELECTED PATHOGENIC SPECIES AND MECHANISMS -- 13. Part III Overview -- 14. Group A Streptococcus and Staphylococcus aureus: Evolution, Reemergence, and Strain Diversification -- 15. Evolution of Enteric Pathogens -- 16. Mycobacterial Evolution: Insights from Genomics and Population Genetics -- 17. The Evolution of Human Fungal Pathogens -- Index -- A -- B -- C -- D -- E -- F -- G -- H -- I -- J -- K -- L -- M -- N -- O -- P -- Q -- R -- S -- T -- V -- W -- X -- Y.