Evolutionary Systems BiologyOrkun S. Soyer The book aims to introduce the reader to the emerging field of Evolutionary Systems Biology, which approaches classical systems biology questions within an evolutionary framework. An evolutionary approach might allow understanding the significance of observed diversity, uncover “evolutionary design principles” and extend predictions made in model organisms to others. In addition, evolutionary systems biology can generate new insights into the adaptive landscape by combining molecular systems biology models and evolutionary simulations. This insight can enable the development of more detailed mechanistic evolutionary hypotheses. |
Contents
| 1 | |
Chapter 2 Metabolic Networks and Their Evolution | 29 |
Chapter 3 Organization Principles in Genetic Interaction Networks | 53 |
Chapter 4 Evolution of Regulatory Networks Nematode Vulva Induction as an Example of Developmental Systems Drift | 79 |
Chapter 5 Lifes Attractors | 93 |
Chapter 6 Evolutionary Characteristics of BacterialTwoComponent Systems | 120 |
Chapter 7 Comparative Interaction Networks Bridging Genotype to Phenotype | 139 |
Chapter 8 Evolution In Silico From Network Structure to Bifurcation Theory | 157 |
Chapter 12 Phenotypic Plasticity and Robustness Evolutionary Stability Theory Gene Expression Dynamics Model and Laboratory Experiments | 249 |
Chapter 13 Genetic Redundancies and Their Evolutionary Maintenance | 279 |
Chapter 14 Evolution of Resource and Energy Managementin Biologically Realistic Gene Regulatory Network Models | 301 |
Chapter 15 Reverse Ecology From Systems to Environments and Back | 329 |
Chapter 16 BacteriaVirus Coevolution | 346 |
Chapter 17 The GenotypePhenotype Maps of Systems Biology and Quantitative Genetics Distinct and Complementary | 371 |
Chapter 18 How Evolutionary Systems Biology Will Help Understand Adaptive Landscapes and Distributions of Mutational Effects | 399 |
Chapter 19 Building Synthetic Systems to Learn Natures Design Principles | 411 |
Chapter 9 On the Search for Design Principles in Biological Systems | 183 |
Chapter 10 Toward a Theory of Multilevel Evolution LongTerm Information Integration Shapes the Mutational Landscape and Enhances Evolvability | 194 |
Chapter 11 Evolutionary Principles Underlying Structure and Response Dynamics of Cellular Networks | 225 |
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Common terms and phrases
Acad Sci USA adaptive alleles analysis approach bacterial biochemical biological systems cell cerevisiae changes chemotaxis coevolution complex deletion developmental distribution Drosophila duplicate genes dynamics effects elegans environment environmental enzymes epistasis epistatic epistatic interactions Escherichia coli Evol evolution evolutionary systems biology evolved example experimental fitness fluctuations flux function gap gene gene duplication gene expression gene networks gene regulatory networks genetic interaction genome genome-scale genotype genotype space genotype-phenotype map horizontal gene transfer interaction networks landscape mechanisms metabolic networks modularity modules Mol Syst Biol molecular molecules mRNA Nat Rev Genet Natl Acad Sci Nature neutral organisms parameters pathways patterns perturbations phage phenotype PLoS Comput Biol population genetics predict Proc Natl Acad processes protein reactions redundant regulation response Reverse Ecology robustness sequence signaling silico simulations species Springer Science+Business Media stochastic structure studies TCSs theory traits transcription factors variance variation vulva Wagner yeast