Microbial Life History by Steven A. Frank; -- Read -- Imperial Library of Trantor

Index

Cover Title Page Copyright Epigraph Contents Preface 1. Microbial Design

How to Read Theoretical Background The Design of Metabolism

Part 1: Theoretical Background

2. Forces of Design

What Is Fitness? The Difficulty of Measuring Fitness

3. Comparison and Causality

Comparative Predictions Evolutionary Response versus Organismal Response Fundamental Forces and Partial Causes Causal Inference Structure and Notation of Comparative Predictions Recap and Goal

4. Brief Examples

Metabolism and Growth Rate Support by Empirical Test Patch Lifespan and Microbial Cancer Heterogeneity in Public Goods Stage-Dependent Growth Summary

5. Theory: Forces

Tragedy of the Commons Similarity Selection and Kin Selection Tradeoffs and Marginal Values Repression of Competition Heterogeneity in Vigor and Public Goods Demography and Reproductive Value Stage-Dependent Traits in Life Cycle The Three Measures of Value Scaling of Time and Space Variable Environments

6. Theory: Traits

Nature of Traits Modification of Traits Origin of Traits

7. Theory: Control

Error-Correcting Feedback and Robustness Principles of Control Error Correction and Signal Amplification Robustness to Process Uncertainty Responsiveness versus Homeostasis Sensors Control Tradeoffs

8. Studying Biological Design

Part 2: The Design of Metabolism

9. Microbial Metabolism 10. Growth Rate

Comparative Hypotheses in the Study of Design Testing Comparative Predictions Comparative Predictions about Growth Rate Comparative Predictions about Tradeoffs

11. Thermodynamics: Biochemical Flux

Entropy Production Force and Resistance Determine Flux Mechanisms of Metabolic Flux Control

12. Flux Modulation: Driving Force

Near-Equilibrium Glycolysis Overflow Metabolism: Mechanisms Overflow Metabolism: Design Puzzles Evolutionary Timescale Alternative Glycolytic Pathways

13. Flux Modulation: Resistance

Resistance Impedes Flux Mechanisms to Alter Resistance and Flux Genetic Drift Challenges in Control Design Problems of Flux Modulation Limitations and Prospects

14. Variant Pathways

Glycolytic Yield Final Electron Acceptors Weak Redox Gradients Electron Flow between Cells Alternative Carbon Sources Hierarchical Usage of Complex Carbohydrates Puzzles of Design

15. Tradeoffs

Biophysical Constraints and Cellular Allocation Exploration versus Exploitation versus Regulation Thermodynamics and Biochemical Flux Fitness Components and Life History Warfare versus Productive Traits Cooperative Traits Timescale Tradeoffs Bet-Hedging Tradeoffs Control Tradeoffs Summary

16. Predictions: Overflow Metabolism

Comparative Predictions and Partial Causes Background Proteome Limitation Membrane Space Limitation Response to Environmental Challenge Summary

17. Predictions: Diauxie, Electrons, Storage

Switching between Food Sources Distributed Electron Flux Storage When Resources Fluctuate Challenges in the Study of Design

18. Design Revisited

References Index