Darwinism, design, and complex systems dynamics

Debating Design: From Darwin to DNA

Volumn , Issue , 2004, Pages 173-190

  Weber, Bruce H ^a   Depew, David J ^b  

^a CALIFORNIA STATE UNIVERSITY   (United States)

^b UNIVERSITY OF IOWA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 84925650631     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1017/CBO9780511804823.010     Document Type: Chapter

References (76)

1. William Whewell, Bridgewater Treatise, Astronomy and General Physics Considered with Reference to Natural Theology (1833).
2. Adami, C., C. Ofria, and T. C. Collier. 2000. Evolution of biological complexity. Proceedings of the National Academy of Science (USA) 97: 4463-68.
3. Agrawal, A. 2000. Transposition and evolution of antigen-specific immunity. Science 290: 1715-16.
4. Agrawal, A., Q. M. Eastman, and D. G. Schatz. 1998. Transposition mediated by RAG1 and RAG2 and its implications for the evolution of the immune system. Nature 394: 744-51.
5. Barth, K., and E. Brunner. 1947. Natural Theology. London: SCM Press.
6. Behe, M.J. 1996. Darwin's Black Box: The Biochemical Challenge to Evolution. New York: The Free Press.
7. Behe, M.J. 2000. Self-organization and irreducibly complex systems: A reply to Shanks and Joplin. Philosophy of Science 67: 155-62.
8. Behe, M.J. 2001. Reply to my critics: A response to reviews of Darwin's Black Box: The Biochemical Challenge to Evolution. Biology and Philosophy 16: 685-709.
9. Camazine, S., J-L. Deneubourg, N. R. Franks, J. Sneyd, Guy Theraulaz, and E. Bonabeau. 2001. Self-Organization in Biological Systems. Princeton, NJ: Princeton University Press.
10. Carroll, S. B., J. K. Grenier, and S. D. Weatherbee. 2001. FromDNA to Diversity: Molec-ular Genetics and the Evolution of Animal Design. Malden, MA: Blackwell Science.
11. Carter, C.W., Jr., andJ. Kraut. 1974. A proposed model for interaction of polypeptides with RNA. Proceedings of the National Academy of Science USA 71: 283-7.
12. Casti, J. L. 1994. Complexification. New York: Harper Collins.
13. Challet, D., and N. F. Johnson. 2002. Optimal combinations of imperfect objects. Physical Review Letters 89: 028701.
14. Collier, J. D., and C. A. Hooker. 1999. Complexly organized dynamical systems. Open Systems and Information Dynamics 6: 241-302.
15. Darwin, C. R. 1859. On the Origin of Species by Means of Natural Selection, or the Preservation ofFavored Races in the Struggle for Life. London: John Murray.
16. Davydov, O. V. 1998. Amino acid contribution to the genetic code structure: End-atom chemical rules of doublet composition. Journal of Theoretical Biology 193: 679-90.
17. Deacon, T. 2003. The hierarchic logic of emergence: Untangling the interdepen-dence of evolution and self-organization. In Evolution and Learning: The Baldwin Effect Reconsidered, ed. B. H. Weber and D. J. Depew. Cambridge, MA: MIT Press, pp. 273-308.
18. Deamer, D. W., and E. Harang. 1990. Light-dependent pH gradients are generated in liposomes containing ferrocyanide. BioSystems 24: 1-4.
19. Deamer, D. W., and R. M. Pashley. 1989. Amphiphilic components of the Murchison carbonaceous condrite: Surface properties and membrane formation. Origin of Life and Evolution of the Bioshpere 19: 21-38.
20. Dembski, W. A. 1998. The Design Inference: Eliminating Chance through Small Probabilities. Cambridge: Cambridge University Press.
21. Dembski, W. A. 1999. Intelligent Design: The Bridge between Science and Theology. Downers Grove, IL: InterVarsity Press.
22. Dembski, W. A. 2000. No Free Lunch: Why Specified Complexity Cannot Be Purchased without Intelligence. Lanham, MD: Rowman and Littlefield.
23. Dennett, D. 1995. Darwin's Dangerous Idea: Evolution and the Meanings of Life. New Ybrk: Simon and Schuster.
24. Depew, D.J. 1998. Intelligent design and irreducible complexity. A rejoinder. Rhetoric and Public Affairs 1: 571-8.
25. Depew, D. J., and B. H. Weber. 1995. Darwinism Evolving: Systems Dynamics and the Genealogy of Natural Selection. Cambridge, MA: MIT Press.
26. Doolittle, R. F. 1993. The evolution of vertebrate blood coagulation. Thrombosis Haemostasis 70: 24-8.
27. Doolittle, R. F., and D. F. Feng. 1987. Reconstructing the history of vertebrate blood coagulation from a consideration of the amino acid sequences of clotting pro-teins. Cold Spring Harbor Symposium on Quantitative Biology 52: 869-74.
28. Futuyma, D. J. 1998. Evolutionary Biology, 3rd ed. Sunderland, MA: Sinauer.
29. Gehring, W. J. 1998. Master Control Genes in Development and Evolution: The Homeobox Story. New Haven, CT: Yale University Press.
30. Gilbert, S. F. 2000. Developmental Biology, 6th ed. Sunderland, MA: Sinauer.
31. Gregersen, N. H. 1998. The idea of creation and the theory of autopoietic processes. Zygon 33: 333-67.
32. Harold, F. M. 1986. The VitalForce: A Study of Bioenergetics. NewYbrk: W. H. Freeman.
33. Harold, F. M. 1991. Biochemical topology: From vectorial metabolism to morphogenesis. Bio-science Reports 11: 347-82.
34. Harold, F. M. 2001. The Way of the Cell: Molecules, OJrganisms and the Order of Life. New Ybrk: Oxford University Press.
35. Haught, J. F. 2000. God after Darwin: A Theology ofEvolution. Boulder, CO: Westview Press.
36. Johnson, P. E. 2000. The Wedge of Truth: Splitting the Foundations of Naturalism. Downers Grove, IL: InterVarsity Press.
37. Johnson, S. 2001. Emergence: The Connected Lives of Ants, Brains, Cities, and Software. New York: Scribner.
38. Joyce, G. F., and L. E. Orgel 1993. Prospects for understanding the origin of the RNA world. In The RNA World, ed. R. F. Gesteland and J. F. Atkins. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press, pp. 1 -24.
39. Kazazian, H. H., Jr. 2000. L1 retrotransposons shape the mammalian genome. Science 289: 1152-53.
40. McGrath, A. E. 2001. A Scientific Theology: Nature. Grand Rapids, MI: Eerdmans.
41. Melendez-Hevia, E., T. G. Waddell, and M. Cascante. 1996. The puzzle of the Krebs citric acid cycle: Assembling the pieces of chemically feasible reactions, and opportunism in the design of metabolic pathways during evolution. Journal of Molecular Biology 43: 293-303.
42. Miller, K. R. 1999. Finding Darwin's God: A Scientist's Search for Common Ground between God and Evolution. New York: HarperCollins.
43. Mills, J. S. 1874. A System ofLogic, 8th ed. London: Longmans, Green.
44. Misteli, T. 2001. The concept of self-organization in cellular architecture. Journal of Cell Biology 155: 181-5.
45. Morowitz, H. 1992. Beginnings of Cellular Life: Metabolism Recapitulates Biogenesis. New Haven, CT: Yale University Press.
46. Morowitz, H., D. W. Deamer, and T. Smith. 1991. Biogenesis as an evolutionary process. Journal of Molecular Evolution 33: 207-8.
47. Murphy, G. L. 2002. Intelligent design as a theological problem. Covalence 4(2) 1-9.
48. Nicholls, D. G., and S. J. Ferguson. 1992. Bioenergetics 2. San Diego: Academic Press.
49. Nicolis, G., and I. Prigogine. 1977. Self-Organization in Nonequilibrium Systems: From Dissipative Structures to Order Through Fluctuations. New York: Wiley.
50. Paley, W. 1802. Natural Theology, or Evidences of the Existence and Attributes of the Deity Collected from the Appearances ofNature. London: Fauldner.
51. Polkinghorne, J. 2001. The Works of Love: Creation as Kenosis. Grand Rapids, MI: Eerdmans.
52. Prigogine, I. 1980. From Being to Becoming: Time and Complexity in the Physical Sciences. San Francisco: Freeman.
53. Prigogine, I. 1997. The End of Certainty: Time, Chaos, and the New Laws of Nature. New York: The Free Press.
54. Ruse, M. 2001. Can a Darwinian Be a Christian? The Relationship between Science and Religion. Cambridge: Cambridge University Press.
55. Ruse, M. 2002. Darwin and Design. Cambridge, MA: Harvard University Press.
56. Schneider, T. D. 2000. Evolution of biological information. Nucleic Acids Research 28: 2794-99.
57. Schrodinger, E. 1944. What Is Life? The Physical Aspect of the Living Cell. Cambridge: Cambridge University Press.
58. Shanks, N. 2001. Modeling biological systems: The Belousov-Zhabotinsky reaction. Foundations of Chemistry 3: 33-53.
59. Shanks, N., and K. H. Joplin. 1999. Redundant complexity: A critical analysis of intelligent design in biochemistry. Philosophy of Science 66: 268-98.
60. Strohman, R. 2002. Maneuvering in the complex path from genotype to phenotype. Science 296: 701-3.
61. Taylor, M. C. 2001. The Moment of Complexity: Emerging Network Culture. Chicago: Uni-versity of Chicago Press.
62. Thornhill, R. H., and D. W. Ussery 2000. A classification of possible routes of Darwinian evolution. Journal of Theoretical Biology 203: 111-16.
63. Tyson, J. L. 1976. The Belousov-Zhabotinski Reaction; Lecture Notes in Biomathematics 10. Berlin: Springer.
64. Tyson, J. L. 1994. What everyone should know about the Belousov-Zhabotinsky reaction. In Frontiers in Mathematical Biology, ed. S. A. Levin. New Ybrk: Springer, pp. 569-87.
65. Van Till, H. J. 1996. Basil, Augustine, and the doctrine of creation's functional in-tegrity. Science and Christian Belief 8: 21-38.
66. Weber, B. H. 1998. Emergence of life and biological selection from the perspective of complex systems dynamics, in Evolutionary Systems: Biological and Epistemological Perspectives on Selection and Self-Organization, ed. G. Van de Vijver, S. N. Salthe, and M. Delpos. Dordrecht: Kluwer, pp. 59-66.
67. Weber, B. H., and D. J. Depew. 1996. Natural selection and self-organization: Dy-namical models as clues to a new evolutionary synthesis. Biology and Philosophy 11: 33-65.
68. Weber, B. H., and D. J. Depew. 2001. Developmental systems, Darwinian evolution, and the unity of science. In Cycles of Contingency, ed. S. Oyama, R. Gray, and P. Griffiths. Cambridge, MA: MIT Press, 239-53.
69. Wicken, J. S. 1987. Evolution, Information and Thermodynamics:Extending theDarwinian Program. New York: Oxford University Press.
70. Williams, R. J. P., andJ. J. R. Frau Sto Da Silva. 1996. The Natural Selection of the Chemical Elements: The Environment and Life's Chemistry. Oxford: Oxford University Press.
71. Williams, R. J. P., andJ. J. R. Frau Sto Da Silva. 1999. Bringing Chemistry to Life: From Matter to Man. Oxford: Oxford University Press.
72. Wistow, G. 1993. Lens crystallins: Gene recruitment and evolutionary dynamism. Trends in Biochemical Science 18: 301-6.
73. Woese, C. 1998. The universal ancestor. Proceedings of the National Academy of Science (USA) 95: 6854-9.
74. Woese, C. 2002. On the evolution of cells. Proceedings of the National Academy of Science (USA) 99: 8742-7.
75. Wolfram, S. 2002. A New Kind of Science. Champaign, IL: Wolfram Media.
76. Xu, X., and R. F. Doolittle. 1990. Presence of a vertebrate fibrinogen-like se-quence in an echinoderm. Proceedings ofthe National Academy ofScience (USA) 87: 2097-101.