ch. # chapter title section
1 An Introduction to Microbial Evolution
2 Population Biology
3 Microbiology
4 Non-Darwinian Forces
5 Natural Selection
6 Evolution of Resistance
7 Passage Through Time
8 Gene Exchange
9 Genomes
10 Cooperation
11 Symbioses
12 Virulence
13 Greater Size and Complexity





#Sections (individual pages)Sub-Sections (major bookmarks)
0 Root Page Structure of Book, Podcast

#Sections (individual pages)Sub-Sections (major bookmarks)
0 Root Page Vocabulary, Practice Quiz, Podcast
1 Introduction to Evolutionary Biology ---
2 Introduction to Ecology ---
3 Evolutionary Ecology (and Microbiology) ---
4 Differentiating Evolutionary and Ecological Studies Stasis, Time, Variations

#Sections (individual pages)Sub-Sections (major bookmarks)
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1 General Principles ---
2 Types of Microorganisms Bacteria, Archaea, Eukarya, Prokaryote, Viruses, Other
3 Some Additional Microbe-Associated Topics Chemical Evolution, Semi-Autonomous Entities, Microbial Evolution
4 Terms and Concepts Media, Culturing, Growth Curve, Koch's Postulates



#Sections (individual pages)Sub-Sections (major bookmarks)
0 Root Page Vocabulary, Practice Quiz, Podcast Podcast
1 Mutations Central Dogma, Damage
2 Types of Mutations Transitions/Transversions, Point, Frameshift, Impact, Etc.
3 Complications on Mutations Convergent/Parallel, Conditional/Plasticity, Neutral, Epistasis/Compensatory, Pleiotropy
4 Mutation Rates Elevation, Rates, General Mutator, Likelihood
5 Fixation of Mutations ---
6 Sampling Error (Genetic Drift) in Microorganisms Muller's Ratchet
7 Migration and Microbial Evolution Sympatry, Introgression, Biogeography

#Sections (individual pages)Sub-Sections (major bookmarks)
0 Root Page Vocabulary, Practice Quiz, Podcast Podcast
1 Natural Selection Basics Fitness, Stochasticity, Hard/Soft, Purifying/Directional
2 Periodic Selection and Consequences Hitchhiking, General Mutators
3 Additional Concepts of Natural Selection Frequency-Dependence, Inclusive Fitness

#Sections (individual pages)Sub-Sections (major bookmarks)
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1 Overview of Non-Darwinian Evolution from a Microbial Perspective Mutations, Substitutions, Specialization, Epistasis, Drift, Horizontal Gene Transfer
2 Diversity of Natural Selection Adaptation, Periodic, Neutral
3 Microbial Resistance and Evolution ---
4 Natural Selection and Microbial Resistance Utility, Cost of Carriage, Transient Utility
5 Non-Darwinian Forces and Microbial Resistance Mutation, Migration, Drift

#Sections (individual pages)Sub-Sections (major bookmarks)
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1 Experimental Evolution, An Introduction ---
2 Serial Passage Environments, Transmission, Avoiding Evolution
3 Chemostats Basics, Births/Deaths, Additional
4 Interactions Competition
5 The Big(ger) Picture Experimental Evolution, Passage Through Time

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1 Phenomena Impacted by Gene Exchange ---
2 Variations on Gene Exchange ---
3 Recombination Genetic, Molecular
4 Outcrossing You Are What You Eat, Bacteria
5 Additional Issues Linkage, Phenotype, Diversity, Why Sex



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1 Organisms and Phylogenies Interfacing, Horizontal Gene Transfer, Phylogenies
2 Evolutionary Divergence Speciation, Orthologs/Paralogs, Mosaicism
3 Gene Transferability Likelihoods, Complexity, Core Genes
4 Categorizing Genes in Terms of Their Transferability ---
5 Gene Redundancy Zone of Paralogy, Redundancy, Erosion

#Sections (individual pages)Sub-Sections (major bookmarks)
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1 Games of Cooperation and Defection Prisoner's Dilemma, Tragedy of the Commons
2 Achieving Mutual Cooperation Spatial Structure, Individuality, Mutation, Purification
3 Microbial Social Interactions Communication, Social Traits,
4 Specific Circumstances Cooperation, Economy/Expediency Chemostats, Batch, Biofilms, Spores, Genomic Merging

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1 Variations on the Theme Microbe/Macrobe, Microbe/Microbe, Consortia
2 Endosymbiosis Origin, Mitochondria, Diversity
3 Serial Endosymbiosis Plastids, Secondary, Other
4 Genomic Transfer ---

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1 On Hosts and Parasites Dilemma, History
2 Transmission Evolution, Availability
3 Parasitism versus Commensalism Expedience, Restraint, Virulence
4 Examples Phage, DI particles, Bleeding Out, Vectors, Contact, STDs
5 Additional Issues Decay, Cancer

#Sections (individual pages)Sub-Sections (major bookmarks)
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1 What is an Individual? ---
2 Multilevel Selection Group Selection, Unit of Selection, Cheating
3 Size Evolution Advantages, Growth, Intracellular Movement, Shear
4 More Complex Cells Endosymbionts, Endomembranes
5 More Complex Bodies Colonial, More than Colonial, Coenocytic, Cellular Differentiation, Microbiomes
6 Problems in Multicellularity Conflict Mediation, Germ Lines, Cancer, Conclusion


Part A of (recitation actually starts at 5:45 into the video…)

Part B of

Part C of



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