Dynamic biological organization fundamentals as applied to cellular systems
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| Format: | Buch |
| Sprache: | English |
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London [u.a.]
Chapman & Hall
1997
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| Ausgabe: | 1. ed. |
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| 245 | 1 | 0 | |a Dynamic biological organization |b fundamentals as applied to cellular systems |c M. A. Aon and S. Cortassa |
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Datensatz im Suchindex
| _version_ | 1819625580144885760 |
|---|---|
| adam_text | Dynamic Biological
Organization
Fundamentals as Applied to Cellular Systems
M A Aon
Associate Professor of Biological Chemistry
Research Career Investigator from CONICET
Argentina
and
S Cortassa
Assistant Professor of Biological Chemistry
Research Career Investigator from CONICET
Argentina
CHAPMAN amp; HALL
London • Weinheim • New York • Tokyo • Melbourne • Madras
Contents
Colour plate section appears between pages 84 and 85
Foreword xiii
Preface xv
Part One Dynamic Organization 1
1 General concepts 3
1 1 Introduction 3
1 2 Biological systems are irreversible because of their 5
continuous free-energy dissipation
1 3 Thermodynamics of irreversible processes 5
1 4 Kinetics: tools and systems of deterministic equations 12
1 5 Biological dynamic systems from the perspective of 26
thermodynamics and kinetics
Appendix 1A 40
Appendix IB 42
2 Dynamic organization in cellular systems 44
2 1 The concept of dynamic organization 45
2 2 Relaxation time: a quantitative characterization of the 46
dynamic behaviour of cellular processes functioning at
different time scales
2 3 The living complexity and levels of organization 47
2 4 Characterization of biological processes at different levels 52
of organization
2 5 Levels of perturbation and levels of explanation 53
2 6 Transitions between levels of organization and cell function 58
2 7 An allometric function describes trajectories of dynamic 59
systems
2 8 An allometric interpretation of the relationship between 62
the characteristic space dimension and the characteristic
relaxation time of biological processes
viii Contents
2 9 An experimental interpretation of coherence further from 63
the transition point
2 10 The allometric power law as implied in growing systems 66
2 11 A power law describes the transition from local to global 70
connectedness in percolation clusters
2 12 The power law: more than a mere mathematical 70
isomorphism?
2 13 Bifurcations and levels of organization 71
3 Rhythms as a fundamental property of biological systems 73
3 1 Some definitions 73
3 2 Rhythms 74
3 3 The cell division cycle 94
3 4 Chaos 96
Appendix 3 102
4 Symmetry in dynamic biological organization 104
4 1 Symmetry 105
4 2 Symmetry and biological organization 107
4 3 Temporal symmetry and biothermokinetics 108
4 4 Curie s principle of symmetry 108
4 5 Asymmetry and transport: anisotropy and vectoriality 110
4 6 Reaction-diffusion and symmetry-breaking 111
4 7 The concept of morphogen 112
4 8 Levels of analysis of developmental processes 114
4 9 Symmetry and development 117
4 10 Fluctuating asymmetry and development 121
4 11 Fractals, symmetry and development 123
4 12 Pattern formation 124
4 13 Some case studies of symmetry in developing systems 131
4 14 Long-range organizational cues 140
4 15 Symmetry and morphogenesis: a synthesis 143
5 Dynamic organization in biologically oriented artificial systems 145
5 1 Conditions for a system to exhibit self-organization 145
5 2 Bistability 147
5 3 Stationary spatial patterns: reaction-diffusion models 152
5 4 Spatio-temporal patterns described in biologically oriented 166
artificial systems as heuristic tools for interpreting similar
phenomena observed in living systems
Appendix 5A Immobilized bienzymatic model 173
Appendix 5B The photobiochemical system 175
Contents ix
Part Two Living Cells under the Perspective of Dynamic 179
Organization
6 Supramolecular structure and enzyme catalysis: the 181
groundplan of living cells
6 1 Supramolecular structure and enzyme catalysis 182
6 2 The groundplan of living cells 194
6 3 The microtrabecular lattice and the cytoskeleton: two 203
levels of organization of the intracellular milieu
64A non-euclidean cytostructure 212
6 5 Topology and reaction rates 219
6 6 The dynamics of the groundplan of living cells 222
6 7 The link between the fractal nature of the cytoskeleton 224
and the spatio-temporal scaling shown by physiological
processes
6 8 Thermodynamic aspects of fractals and self-organization 225
6 9 Dynamic organization and connectedness in 226
supramolecular networks supporting catalysis
6 10 Models of cytoplasmic structure and function 228
7 Spatio-temporal regulation of glycolysis and oxidative 234
phosphorylation in vivo
7 1 Subcellular dynamics 235
7 2 Steady state control 236
7 3 Regulation of transient and steady state behaviour 242
7 4 Outlook 275
Appendix 7A Modelling hexokinase ambiquity 277
Appendix 7B The matrix method of metabolic control 279
analysis (MCA) for the calculation of flux, metabolite and branch
control coefficients as applied to glycolysis and the branch to
ethanolic fermentation and the TCA cycle
8 About the dynamic behaviour of microorganisms 282
8 1 The phase space and the chemostat 282
8 2 Functional self-similarity at different levels of description 284
of living systems
8 3 Black and grey boxes: the description of the metabolic 286
behaviour of microorganisms
8 4 Bioengineering of biocatalysts for biotransformation: a 293
transdisciplinary approach
8 5 Bioenergetics and the growth rate of microorganisms 296
8 6 Physiological and bioenergetic studies in continuous 297
cultures: environmentally induced redirection of metabolic
fluxes
x Contents
8 7 Control of metabolic fluxes in lower eukaryotic and 303
prokaryotic cells
8 8 Quantitative prediction of interesting behaviours in 306
metabolic pathways
8 9 Dependence of thermodynamic efficiency on the 308
topology of metabolic pathways as well as their built-in
kinetic nonlinearities
8 10 Microbial growth in natural environments 312
8 11 A perspective for a transdisciplinary approach 316
Appendix 8A The biothermokinetic method 316
Appendix 8B Methodology to determine fluxes of carbon, 320
phosphorylation and redox intermediates during growth of S
cerevisiae on different carbon sources
9 Dynamics of cell growth and division 322
9 1 Spatio-temporal coordination of gene expression, 322
energetics and metabolism: its significance for cell
growth and division
9 2 Coordination of cell growth and division 330
9 3 Regulation of gene expression during metabolic 339
transitions
9 4 Metabolic transitions and cellular transformation 349
9 5 Neoplasia viewed from an integrative perspective 356
of cellular metabolism, energetics and gene expression
10 Spatio-temporal coordination of cellular energetics and 361
metabolism during development
10 1 The problem 361
10 2 Genes do not determine form directly but act through 362
lengthy cascades of pleiotropic effects
10 3 Cellular cytoarchitecture and development 363
10 4 Biothermokinetics of gene expression and the switch 365
between developmental pathways
10 5 Dynamic organization in early amphibian embryos 376
10 6 Metabolism, bioenergetics and gene expression during 379
sporulation in Saccharomyces cerevisiae
10 7 Thinking about development in the light of the dynamic 389
organization concept
11 Cell growth and differentiation from the perspective of 391
dynamics and thermodynamics of cellular and subcellular
processes
Contents xi
11 1 Biothermokinetics of gene expression and cell growth 391
and proliferation
11 2 To what extent is the rate of energy dissipation by an 397
organism genetically or environmentally determined?
11 3 How can the reciprocal influence of genetic background 398
and environment on metabolic fluxes be expressed
quantitatively?
11 4 Coordination of catabolic and anabolic fluxes as a signal 400
for proliferation and differentiation
11 5 Additional experimental support of the flux coordination 418
hypothesis
11 6 Concluding remarks 423
Appendix 11 The control of the flux 426
12 Dynamic coupling and spatio-temporal coherence in 430
cellular systems
12 1 Dynamic coupling of (sub)cellular processes 431
12 2 Electroconformational coupling 445
12 3 Changes in gene expression coupled to transport
processes, energy metabolism and hormonal effects 448
12 4 Community dynamics and coupling between cells: 459
synchronization or mutual stimulation mechanisms at
the cell population level
12 5 Chemical, mechanical and electrical coupling between 467
processes at different levels of organization in plant cell
growth
12 6 Carbon and energy coupling for metabolite and biomass 476
production
Appendix 12A Model formulation 478
Appendix 12B PTS-glycolysis coupled model 481
Appendix 12C Model of mixed substrate catabolism 482
13 Conclusions and outlook: models, facts and biocomplexity 485
13 1 Approaches to complexity 485
13 2 Levels of organization and reductionism 492
13 3 Development in the framework of dynamic organization 494
13 4 Final remarks 496
References 498
Index 545
|
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| spellingShingle | Aon, Miguel A. Cortassa, Sonia Dynamic biological organization fundamentals as applied to cellular systems Biochimie ram Cellule - Physiologie ram Citologia e biologia celular larpcal Cytologie ram Termodinamica larpcal Thermodynamique ram Biochemistry Cell Biology Cytology Dynamics Thermodynamics Organisation (DE-588)4043774-7 gnd Biologisches System (DE-588)4122930-7 gnd |
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| title | Dynamic biological organization fundamentals as applied to cellular systems |
| title_auth | Dynamic biological organization fundamentals as applied to cellular systems |
| title_exact_search | Dynamic biological organization fundamentals as applied to cellular systems |
| title_full | Dynamic biological organization fundamentals as applied to cellular systems M. A. Aon and S. Cortassa |
| title_fullStr | Dynamic biological organization fundamentals as applied to cellular systems M. A. Aon and S. Cortassa |
| title_full_unstemmed | Dynamic biological organization fundamentals as applied to cellular systems M. A. Aon and S. Cortassa |
| title_short | Dynamic biological organization |
| title_sort | dynamic biological organization fundamentals as applied to cellular systems |
| title_sub | fundamentals as applied to cellular systems |
| topic | Biochimie ram Cellule - Physiologie ram Citologia e biologia celular larpcal Cytologie ram Termodinamica larpcal Thermodynamique ram Biochemistry Cell Biology Cytology Dynamics Thermodynamics Organisation (DE-588)4043774-7 gnd Biologisches System (DE-588)4122930-7 gnd |
| topic_facet | Biochimie Cellule - Physiologie Citologia e biologia celular Cytologie Termodinamica Thermodynamique Biochemistry Cell Biology Cytology Dynamics Thermodynamics Organisation Biologisches System |
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