Adaptive walks in a gene network model of morphogenesis: Insights into the Cambrian explosion

International Journal of Developmental Biology

Volumn 47, Issue 7-8, 2003, Pages 685-693

  Solé, Ricard V ^a,b   Fernández, Pau ^a   Kauffman, Stuart A ^b,c  

^a UNIVERSITAT POMPEU FABRA   (Spain)

^b SANTA FE INSTITUTE   (United States)

^c UNIVERSITY OF NEW MEXICO SCHOOL OF MEDICINE   (United States)

Author keywords

Evo devo; Gene networks; Landscape; Morphogenesis; Pattern formation

Indexed keywords

DEVELOPMENT; EVOLUTIONARY ADAPTATION; GENE EXPRESSION; GENETIC VARIABILITY; GEOLOGY; METAZOON; MORPHOGENESIS; NONHUMAN; PRIORITY JOURNAL; REVIEW;

ADAPTATION, PHYSIOLOGICAL; ALGORITHMS; ANIMALS; CELL COMMUNICATION; COMPUTER SIMULATION; EVOLUTION, MOLECULAR; FOSSILS; GENE EXPRESSION REGULATION, DEVELOPMENTAL; GENES, REGULATOR; GENETICS, POPULATION; KINETICS; MODELS, THEORETICAL; MORPHOGENESIS; MULTIGENE FAMILY; VARIATION (GENETICS);

METAZOA;

EID: 1642553332     PISSN: 02146282     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Review

References (40)

1. ALBERT, R. and OTHMER, H. G. (2003). The topology of the regulatory interactions predicts the expression pattern of the Drosophila segment polarity genes. J. Theor. Biol. 223: 1-18.
2. ARNONE, M. I. and DAVIDSON, E. H. (1997) The hardwiring of development: organization and function of genomic regulatory systems. Development 124: 1851-1884.
3. ARTHUR, W. (1997). The origin of body plans. Cambridge U. Press, Cambridge.
4. ARTHUR, W. (2002). The emerging conceptual framework of evolutionary developmental biology. Nature 415: 757-764.
5. BODNAR, J. W. (1997) Programming the Drosophila embryo. J. Theor. Biol. 188: 391-445.
6. CARROLL, S. B. (2001) Chance and necessity: The evolution of morphological complexity and diversity, Nature 409: 1102-1109.
7. EBLE, G. (1998) The role of development in evolutionary radiations. In: Biodiversity Dynamics. M. L. McKinney and J. A. Drake, eds. pp. 132-161. Columbia U. Press, New York.
8. ERWIN, D. H. (1998) The end and the beginning: Recoveries from mass extinctions. Trends Ecol. Evol. 13: 344-349.
9. ERWIN, D. H. and DAVIDSON, E. H. (2002) The last common bilaterian encestor. Development 129: 3021-3032.
10. GEHRING, W. J. (1998) Master control genes in development and evolution: the homeobox story. Yale U. Press, New Haven.
11. GIBSON, G. (2002) Developmental evolution: getting robust about robustness. Curr. Biol. 12: R347-R349.
12. GOULD, S. J. (2003) The Stucture of Evolutionary Theory, Belknap, Harvard.
13. HASTY, J., McMILLEN, D., ISAACS, F. and COLLINS, J. J. (2001) Computational studies on gene regulatory networks: in numero molecular biology. Nature Rev. Gen. 2: 268-279.
14. JACKSON, E. R., JOHNSON, D. and NASK, W. G. (1986) Gene networks in development. J. Theor. Biol. 119: 379-391.
15. KAUFFMAN, S. A. (1989) Cambrian Explosion and Permian Quiescence: Implications of Rugged Fitness Landscapes. Evol. Ecol. 3: 274-281.
16. KAUFFMAN, S. A. (1993) The origins of order. Oxford U. Press, New York.
17. KAUFFMAN, S. A. and LEVIN, S. (1987) Towards a general theory of adaptive walks on rugged landscapes. J. Theor. Biol. 128: 11-26.
18. MAYNARD-SMITH, J. and SZATHMARY, E. (1995) The major transitions in evolution. Oxford U. Press, Oxford.
19. MEIR, E, von DASSOW, G., MUNRO, E. and ODELL, G. (2002) Robustness, flexibility and the role of lateral inhibition in the neurogenic growth. Curr. Biol. 12: 778-786.
20. MENDOZA, L., THIEFFRY, D. and ALVAREZ-BUYLLA, E. R. (1999) Genetic control of flower morphogenesis in Arabidopsis thaliana: a logical analysis. Bioinformatics 15: 593-606.
21. MJLOSNESS, E., SHARP, D. H. and REINTIZ, J. (1991) A connectionist model of development. J. Theor. Biol. 152: 429-453.
22. MORRIS, C. (1998) The Crucible of Creation. Oxford U. Press, Oxford.
23. NIKLAS, K. J. (1997) The Evolutionary Biology of Plants. University of Chicago Press. Chicago.
24. PALMER, R. (1991) Optimization on rugged landscapes. In: Molecular evolution on rugged landscapes: proteins, RNA and the immune system. A. Perelson and S. A. Kauffman eds. pp. 3-23. Addison-Wesley, Reading, MA.
25. RAFF, R. A. (1994) The Shape of Life. Clarendon Press, Oxford.
26. ROWE, G. W. (1994) Theoretical models in biology, Clarendon Press, Oxford.
27. SALAZAR, I., SOLE, R. V. and GARCIA-FERNANDEZ, J. (2000) Gene networks capable of pattern formation: from induction to reaction-diffusion. J. Theor. Biol. 205: 587-603.
28. SALAZAR, I., SOLE, R. V. and NEWMAN, S. (2001) Phenotypic and dynamical transitions in model genetic networks I: Emergence of patterns and genotype-phenotype relationships. Evol. Dev. 3: 84-94.
29. SANCHEZ, L. and THIEFFRY, D. (2001) A logical analysis of the Drosophila gap-gene system. J. Theor. Biol. 211: 115-141.
30. SHUBIN, N. H. and MARSHALL, C. R. (2000) Fossils, genes and the origin of novelty. Paleobiology 26(4) Suppl: 324-340.
31. SOLE, R. V., SALAZAR, I. and GARCIA-FERNANDEZ, J. (2000) Landscapes, gene networks and pattern formation: on the cambrian explosion. Adv. Complex Syst. 2: 313-337.
32. SOLE, R. V., SALAZAR, I. and GARCIA-FERNANDEZ, J. (2002) Common pattern formation, modularity and phase transitions in a gene network model of morphogenesis. Physica A 305: 640-647.
33. SOLE, R. V. and GOODWIN, B. C. (2001) Signs of Life: how complexity pervades biology. Basic Books, Perseus, New York.
34. SOLE, R. V. and PASTOR-SATORRAS, R. (2002) Complex networks in genomics and proteomics. In: Handbook of Graphs and Networks, S. Bornholdt and H.G. Schuster, eds. pp. 147-169. John Wiley-VCH. Berlin.
35. STADLER, P. (2002) Fitness Landscapes. In: Biological Evolution and Statistical Physics. M. Lassig and A. Valleriani, eds. pp. 187-207. Springer, Berlin.
36. TAUTZ, D. and SCHMID, K. J. (1998) From genes to individuals: developmental genes and the generation of the phenotype. Phil. Trans. R. Soc. Lond. B 353: 231-240.
37. VALENTINE, J. W., COLLINS, A. G. and MEYER, C. P. (1994) Morphological complexity increase in metazoans. Paleobiology 20: 131-142.
38. VALENTINE, J. W., JABLONSKI, D. and ERWIN, D. H. (1999) Fossils, molecules and embryos: new perspectives on the Cambrian explosion. Development 126: 851-859.
39. von DASSOW, G., MEIR, E., MUNRO, E. and ODELL, G. M. (2000) The segment polarity network is a robust developmental module. Nature 406: 188-192.
40. WILKE, C. O. and ADAMI, C. (2002) The biology of digital organisms. Trends Ecol. Evol. 17: 528: 532.