- Title Pages
- Preface
- Acknowledgments
- Introduction
-
1 The Early History of Protocells: The Search for the Recipe of Life -
2 Experimental Approaches to Fabricating Artificial Cellular Life -
3 Semisynthetic Minimal Cells: New Advancements and Perspectives -
4 A Roadmap to Protocells -
II INTEGRATION -
5 Steps Toward a Synthetic Protocell -
6 Assembly of a Minimal Protocell -
7 Population Analysis of Liposomes with Protein Synthesis and a Cascading Genetic Network -
8 Constructive Approach to Protocells: Theory and Experiments -
9 Origin of Life and Lattice Artificial Chemistry -
10 Models of Protocell Replication -
11 Compositional Lipid Protocells: Reproduction without Polynucleotides -
12 Evolutionary Microfluidic Complementation Toward Artificial Cells -
III COMPONENTS -
13 Self-Replication and Autocatalysis -
14 Replicator Dynamics in Protocells -
15 Peptide Nucleic Acids as Prebiotic and Abiotic Genetic Material -
16 The Core of a Minimal Gene Set: Insights from Natural Reduced Genomes -
17 Parasitism and Protocells: Tragedy of the Molecular Commons -
18 Forming the Essential Template for Life: The Physics of Lipid Self-Assembly -
19 Numerical Methods for Protocell Simulations -
20 Core Metabolism as a Self-Organized System -
21 Energetics, Energy Flow, and Scaling in Life -
IV BROADER CONTEXT -
22 Gánti’s Chemoton Model and Life Criteria -
23 Viral Individuality and Limitations of the Life Concept -
24 Nonlinear Chemical Dynamics and the Origin of Life: The Inorganic-Physical Chemist Point of View -
25 Early Ancestors of Existing Cells -
26 Prebiotic Chemistry, the Primordial Replicator, and Modern Protocells -
27 Cell-like Entities: Scientific Challenges and Future Applications -
28 Social and Ethical Issues Concerning Protocells - Glossary
- About the Authors
- Index
Numerical Methods for Protocell Simulations
Numerical Methods for Protocell Simulations
- Chapter:
- (p.407) 19 Numerical Methods for Protocell Simulations
- Source:
- Protocells
- Author(s):
Yi Jiang
Bryan Travis
Chad Knutson
Jinsuo Zhang
Pawel Weronski
- Publisher:
- The MIT Press
This chapter provides an extensive review of the physics of lipid self-assembly in water and the emergence of lipid micelles, lipid bilayers, and lipid vesicles. It describes the trans-bilayer and lateral structure of lipid bilayers and discusses them in relation to protein and enzyme function. The chapter demonstrates the use of dissipative particle dynamics (DPD) to simulate lipid self-assembly and shows how this technique produces micelles, tubular filaments, bilayers, and closed vesicles.
Keywords: lipid self-assembly, lipid micelles, lipid bilayers, lipid vesicles, protein, enzyme, dissipative particle dynamics, DPD, tubular filaments, closed vesicles
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- Title Pages
- Preface
- Acknowledgments
- Introduction
-
1 The Early History of Protocells: The Search for the Recipe of Life -
2 Experimental Approaches to Fabricating Artificial Cellular Life -
3 Semisynthetic Minimal Cells: New Advancements and Perspectives -
4 A Roadmap to Protocells -
II INTEGRATION -
5 Steps Toward a Synthetic Protocell -
6 Assembly of a Minimal Protocell -
7 Population Analysis of Liposomes with Protein Synthesis and a Cascading Genetic Network -
8 Constructive Approach to Protocells: Theory and Experiments -
9 Origin of Life and Lattice Artificial Chemistry -
10 Models of Protocell Replication -
11 Compositional Lipid Protocells: Reproduction without Polynucleotides -
12 Evolutionary Microfluidic Complementation Toward Artificial Cells -
III COMPONENTS -
13 Self-Replication and Autocatalysis -
14 Replicator Dynamics in Protocells -
15 Peptide Nucleic Acids as Prebiotic and Abiotic Genetic Material -
16 The Core of a Minimal Gene Set: Insights from Natural Reduced Genomes -
17 Parasitism and Protocells: Tragedy of the Molecular Commons -
18 Forming the Essential Template for Life: The Physics of Lipid Self-Assembly -
19 Numerical Methods for Protocell Simulations -
20 Core Metabolism as a Self-Organized System -
21 Energetics, Energy Flow, and Scaling in Life -
IV BROADER CONTEXT -
22 Gánti’s Chemoton Model and Life Criteria -
23 Viral Individuality and Limitations of the Life Concept -
24 Nonlinear Chemical Dynamics and the Origin of Life: The Inorganic-Physical Chemist Point of View -
25 Early Ancestors of Existing Cells -
26 Prebiotic Chemistry, the Primordial Replicator, and Modern Protocells -
27 Cell-like Entities: Scientific Challenges and Future Applications -
28 Social and Ethical Issues Concerning Protocells - Glossary
- About the Authors
- Index
