From snowflake formation to growth of bacterial colonies II: Cooperative formation of complex colonial patterns

Contemporary Physics

Volumn 38, Issue 3, 1997, Pages 205-241

  Ben Jacob, Eshel ^a  

^a TEL AVIV UNIVERSITY   (Israel)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 0040007234     PISSN: 00107514     EISSN: None     Source Type: Journal    
DOI: 10.1080/001075197182405     Document Type: Article

References (98)

1. Albrecht-Buehler, G., Int. Rev. Cytol., 120, 1919.
2. Pelce, P. and Pocheau, A., 1992, Geometrical approach to the morphogenesis of unicellular algea, J. theor. Biol., 156, 197-214.
3. Rosenberg, E. (editor), 1984, Myxobacteria Development and Cell Interactions (New York: Springer).
4. Kessler, J. O., 1985, Co-operative and concentration phenomena of swimming micro-organisms, Contemp. Phys., 26, 147-166.
5. Shapiro, J. A., 1988, Bacteria as multicellular organisms, Sci. Am., 258, 62-69.
6. Haken, H., 1988, Information and self-organization., (Berlin: Springer).
7. Nicolis, G. and Prigogine, I., 1989, Exploring Complexity (New York: W. H. Freeman).
8. Shapiro, J. A. and Trubatch, D., 1991, Sequential events in bacterial colony morphogenesis, Physica D., 49, 214-223.
9. Kessler, D. A. and Levine, H., 1993, Pattern formation in Dictyostelium via the dynamics of cooperative biological entities, Phys. Rev. E., 48, 4801-4804.
10. Wiener, N., 1948, Cybernetics: or Control and Communication in the Animal and Machine (New York: Wiley).
11. Doudoroff, M., Stainer, R. Y. and Adelberg, E. A., 1957, The Microbial World (New Jersey: Englewood Cliffs. Prentice-Hall).
12. Kessler, D. A., Koplik, J. and Levine, H., 1988. Pattern selection in fingered growth phenomena, Ad. Phys., 37, 255.
13. Langer, J. S., 1989, Dendrites, viscous fingering, and the theory of pattern formation, Science, 243, 1150-1154.
14. Ben-Jacob, E. and Garik, P., 1990, The information of patterns in non-equilibrium growth, Nature, 343, 523-530.
15. Ben-Jacob, E., 1993, From snowflake formation to the growth of bacterial colonies, part I: Diffusive patterning in non-living systems, Contemp. Phys., 34, 247-273.
16. Mandelbrot, B. B., 1977, Fractals: Form, Chance and Dimension (San Francisco, California: Freeman).
17. Mandelbrot, B. B., 1977, The Fractal Geometry of Nature (San Francisco, California: Freeman).
18. Fujikawa, H. and Matsushita, M., 1989, Fractal growth of Bacillus subtilis on agar plates, J. phys. Soc. Japan, 58, 3875-3878.
19. Matsushita, M. and Fujikawa, H., 1990, Diffusion-limited growth in bacterial colony formation, Physica A., 168, 498-506.
20. Matsushita, M., Wakita, J.-I. and Matsuyama, T., 1995, Growth and morphological changes of bacteria colonies, Spatio-Temporal Patterns in Nonequilibrium Complex Systems, Santa Fe Institute Studies in the Sciences of Complexity, edited by P. E. Cladis and P. Palffy-Muhoray (Reading, Massachusetts: Addison-Wesley), pp. 609-618.
21. Ben-Jacob, E., Shochet, O., Tenenbaum, A. and Avidan, O., 1995, Evolution of complexity during growth of bacterial colonies, Spatio-Temporal Patters in Nonequilibrium Complex Systems, edited by P. E. Cladis and P. Palffy-Muhoray (Reading, Massachusetts: Addison-Wesley), pp. 619-634.
22. Ben-Jacob, E., Shmueli, H., Shochet, O and Tenenbaum, A., 1992, Adaptive self-organization during growth of bacterial colonies. Physica A., 187, 378-424.
23. Ben-Jacob, E., Tenenbaum, A., Shochet, O. and Avidan, O., 1994, Holotransformations of bacterial colonies and genome cybernetics. Physcia A., 202, 1-47.
24. Ben-Jacob, E., Shochet, O. and Tenenbaum, A., 1994, Bakterien schließen sich zu bizarren formationen zusammen, Muster des Ledendigen: Faszination inker Entstehung und Simulation, edited by A. Deutsch (Braunschweig: Vieweg).
25. Matsuyama, T., Harshey, R. M. and Matsushita, M., 1993, Self-similar colony morphogenesis by bacteria as the experimental model of fractal growth by a cell population, Fractals, 1, 302-311.
26. Matsuyama, T. and Matsushita, M., 1993, Fractal morphogenesis by a bacterial cell population, Crit. Rev. Microbiol., 19, 117-135.
27. Ben-Jacob, E., Shochet, O., Tenenbaum, A., Cohen, I., Czirók, A. and Vicsek, T., 1994, Generic modelling of cooperative growth patterns in bacterial colonies, Nature, 368, 46-49.
28. Ben-Jacob, O., Shochet, O., Tenenbaum, A., Cohen, I., Czirók, A. and Vicsek, T., 1994, Communication, regulation and control during complex patterning of bacterial colonies, Fractals, 2, 15-44.
29. Ben-Jacob, E., Cohen, I., Shochet, O., Aranson, I., Levine, H. and Tsimiring, L., 1995, Complex bacterial patterns. Nature, 373, 566-567.
30. Ben-Jacob, E., Cohen, I., Shochet, O., Czirók, A. and Vicsek, T., 1995, Cooperative formation of chiral patterns during growth of bacterial colonies, Phys. Rev. Lett., 75, 2899-2902.
31. Czirók, A., Ben-Jacob, E., Cohen, I. and Viscek, T., 1996, Formation of complex bacterial colonies via self-generated vortices. Phys. Rev. E., 54, 1791-1801.
32. Ben-Jacob, E., Cohen, I., Czirók, A., Viscek, T. and Gutnick, D. L., 1997, Chemomodulation of cellular movement and collective formation of vortices by swarming bacteria and colonial development. Physica A. (in press).
33. Mendelson, N. H., 1978, Helical Bacillus subtilis macrofibers: morphogenesis of a bacterial multicellular macroorganism, Proc. natln. Acad. Sci. USA, 75, 2478-2482.
34. Devreotes, P., 1989, Dictyostelium discoideum: a model system for cell-cell interactions in development, Science, 245, 1054-1058.
35. Matsuyama, T., Kaneda, K., Nakagawa, Y., Isa, K., Hara-Hotta, H. and Yano, I., 1992, A novel extracellular cyclic lipopeptide which promotes flagellum-dependent and -independent spreading growth of Serratia marcescens, J. Bacteriol., 174, 1769-1776.
36. Harshey, R. M., 1994, Bees aren't the only ones: swarming in gram-negative bacteria, Molec. Microbiol., 13, 389-394.
37. Fuqua, W. C., Winans, S. C. and Greenberg, E. P., 1994, Quorum sensing in bacteria: the luxr luxi family of cell density-responsive transcriptional regulators, J. Bacteriol., 176, 269-275.
38. Latifi, A., Winson, M. K., Foglino, M., Bycroft, B. W., Stewart, G. S., Lazdunski, A. and Williams, P., 1995, Multiple homologues of luxr and luxi control expression of virulence determinants and secondary metabolites through quorum sensing in Pseudomonas aeruginosa paol. Molec. Microbiol., 17, 333-343.
39. Budrene, E. O. and Berg, H. C., 1991, Complex patterns formed by motile cells of Escherichia coli, Nature, 349, 630-633.
40. Blat, Y. and Eisenbach, M., 1995, Tar-dependent and -independent pattern formation by Salmonella typhimirium, J Bacteriol., 177, 1683-1691.
41. Budrene, E. O. and Berg, H. C., 1995, Dynamics of formation of symmetrical patterns by chemotactic bacteria, Nature, 376, 49-53.
42. Fujikawa, H. and Matsushita, M., 1991, Bacterial fractal growth in the concentration field of nutrient, J. phys. Soc. Japan. 60, 88-94.
43. Ryan, F. J. and Wainwright, L. K., 1954, Nuclear segregation and the growth of clones of spontaneous mutants of bacteria, J. Gen. Microbiol., 11, 364-379.
44. Shapiro, J. A., 1984, Observations on the formation of clones containing arab-lacz cistron fusions, Molec. gen. Genet., 194, 79-90.
45. Cairns, J., Overbaugh, J. and Miller, S., 1988, The origin of mutants, Nature, 335, 142-145.
46. Hall, B. G., 1988, Adaptive evolution that requires multiple spontaneous mutations, i. mutations involving an insertion sequence, Genetics. 120, 887-897.
47. Hall, B. G., 1991, Adaptive evolution that requires multiple spontaneous mutations: mutations involving base substitutions, Proc. natln. Acad. Sci. USA, 88, 5882-5886.
48. Foster, P. L., 1993, Adaptive mutation: the uses of adversity, A. Rev. Microbiol., 47, 467-504.
49. Shapiro, J. A., 1995, Adaptive mutations: who's really in the garden, Science, 268, 373-374.
50. [50 Lenski, R. E., Slatkin, M. and Ayala, F. J., 1989, Mutation and selection in bacterial populations: alternatives to the hypothesis of directed mutation, Proc. natln. Acad. Sci. USA, 86, 2775-2778.
51. Gutnick, D., 1995, (private communication).
52. Allison, C. and Hughes, C., 1991, Bacterial swarming: an example of prokrayotic differentiation and multicellular behavior. Sci. Prog., 75, 403-422.
53. Gutnick, D. L., Freidkin, E. and Cohen, I., 1997, unpublished; Rudner, R., 1992, unpublished.
54. Ben-Jacob, E., Garik, P., Muller, T. and Grier, D., 1988, Characterization of morphology transitions in diffusion-controlled systems, Phys. Rev. A., 38, 370.
55. Mendelson, N. H. and Salhi, B., 1996, Patterns of reporter gene expression in the phase diagram of Bacillus subtilis colony forms, J. Bacteriol., 178, 1980-1989.
56. Eisenbach, M., 1990, Functions of the flagellar modes of rotation in bacterial motility and chemotaxis, Molec. Microbiol., 4, 161-167.
57. Henrichsen, J., 1972, Bacterial surface translocation: a survey and a classification, Bacteriol. Rev., 36, 478-503.
58. Kaiser, D. and Losick, R., 1993, How and why bacteria talk to each other, Cell, 73, 873-887.
59. Grossman, A. D. and Losick, R., 1988, Extracellular control of spore formation in Bacillus subtilis, Proc. natln. Acad. Sci. USA, 85, 4369-4373.
60. Kuspa, A., Plamann, L. and Kaiser, D., 1992, A-signalling and the cell density requirement for Myxococcus xanthus development, J. Bacteriol., 174, 7360-7369.
61. Adler, J., 1969, Chemoreceptors in bacteria, Science, 166, 1588-1597.
62. Berg, H. C. and Purcell, E. M., 1977, Physics of chemoreception, Biophys, J., 20, 193-219.
63. Lackiie, J. M., (editor), 1986, Biology of the Chemotactic Response (Cambridge University Press).
64. Berg, H. C., 1993, Random Walks in Biology (Princeton University Press).
65. Murray, J. D., 1989, Mathematical Biology (Berlin: Springer).
66. Adler, J., 1966, Chemotaxis in bacteria, Science, 153, 708-716.
67. Wolfe, A. J. and Berg, H. C., 1989, Migration of bacteria in semisolid agar, Proc. natln. Acad. Sci. USA, 86, 6973-6977.
68. Horgan, J., 1995, From complexity to perplexity, Sci. Am., 95, 74-79.
69. Azbel, M. Y., 1993, Survival-extinction transition in bacteria growth, Europhys. Lett., 22, 311-316.
70. Shochet, O., Kassner, K., Ben-Jacob, E., Lipson, S. G. and MÜller-Krumbhaar, H., 1992, Morphology transition during non-equilibrium growth: I study of equilibrium shapes and properties, Physica A., 181, 136-155.
71. Shochet, O., Kassner, K., Ben-Jacob, E., Lipson, S. G. and Müller-Krumbhaar, H., 1992, Morphology transition during non-equilibrium growth: II. morphology diagram and characterization of the transition, Physica A., 187, 87-111.
72. Shochet, O., 1995, Study of late-stage growth and morphology selection during diffusive patterning, PhD thesis, Tel-Aviv University.
73. Tsimiring, L., Levine, H., Aranson, I., Ben-Jacob, E., Cohen, I., Shochet, O. and Reynolds, W. N., 1995, Aggregation patterns in stressed bacteria, Phys. Rev. Lett., 75, 1859-1862.
74. Ben-Jacob, E., Shochet, O., Tenenbaum, A., Cohen, I., Czirók, A. and Vicsek, T., 1996, Response of bacterial colonies to imposed anisotropy, Phys. Rev. E., 53, 1835-1845.
75. Hegstrom, R. A. and Kondepudi, D. K., 1990, The handedness of the universe, Sci. Am., 262, 108-115.
76. Avetisov, V. A., Goldanskii, V. I. and Kuzmin, V. V., 1991, Handedness, origin of life and evolution, Phys. Today, July, 33-41.
77. Mendelson, N. H. and Keener, S. L., 1982, Clockwise and counter-clockwise pinwheel colony morphologies of Bacillus subtilis are correlated with the helix band of the strain, J. Bacteriol., 151, 455-457.
78. Mendelson, N. H. and Thwaites, J. J., 1989, Cell wall mechanical properties as measured with bacterial thread made from Bacillus subtilis, J. Bacteriol., 171, 1055-1062.
79. Mendelson, N. H., 1990, Bacterial macrofibres: the morphogenesis of complex multicellular bacterial forms, Sci. Prog., 74, 425-441.
80. Stock, J. B., Stock, A. M. and Mottonen, M., 1990, Signal transduction in bacteria, Nature, 344, 395-400.
81. Shaw, C. H., 1991, Swimming against the tide: chemotaxis in Agrobacterium, BioEssays, 13, 25-29.
82. Ford, W. W., 1916, Studies on aerobic spore-bearing non-phatogenic bacteria, part ii. Miscellaneous cultures, J. Bacteriol., 1, 518-526.
83. Smith, R. N. and Clacrk, F. E., 1938, Motile colonies of Bacillus alvei and other bacteria, J. Bacteriol., 35, 59-60.
84. Wolf, G. (editor), 1968, Encyclopaedia Cinematographica (Göttagen: Institut für Wissenschaftlichen Film).
85. Reynolds, C. W., 1987, Flocks, herds, and schools: a distributed behavioral model, Comput. Graphics, 21, 25-34.
86. Toner, J. and Tu, Y., 1995, Long-range order in a two-dimensional dynamical xy model: how birds fly together, Phys. Rev. Lett., 75, 4326-4329.
87. Dukler, A., 1993, Isolation and characterization of bacteria growing in patterns on the surface of solid agar, Senior project under the supervision of D. Gutnick, Tel-Aviv University.
88. Hemmingsson, J., 1995, Modellization of self-propelling particles with a coupled map lattice model, J. Phys. A., 28, 4245-4250.
89. Duparcmeur, Y. L., Herrmann, H. and Troadec, J. P., 1995, Spontaneous formation of vortex in a system of self motorized particles, J. Phys. Paris I., 5, 1119-1128.
90. Ben-Jacob, E., Cohen, I. and Czirók, A., 1996, Smart bacterial colonies, Physics of Biological Systems: From Molecule to Species, Edited by H. Flyvbgerg, J. H. Mogens, H. Jensen, O. G. Movritsen and K. Sneppen. (Berlin: Springer). 307-324.
91. Ben-Jacob, E. and Cohen, I., 1997, Cooperative formation of bacterial patterns, Bacteria as Multicellular Organisms, edited by J. A. Shapiro and M. Dwarkin (Oxford University Press) 394-416.
92. Shapiro, J. A. and Dwarkin, M., (editors), 1997, Bacteria as Multicellular Organisms, pp. 394-416.
93. Shapiro, J. A., 1992, Natural genetic engineering in evolution, Genetica, 86, 99-111.
94. Waldrop, M. M., 1992, Complexity: The Emerging Science at the Edge of Order and Chaos (New York: Simon & Schuster).
95. Simpson, J. A. and Weiner, E. S. C. (editors), 1989, The Oxford English Dictionary, Vol. III, second edition (Oxford University Press).
96. Atlan, H., 1974, On a formal definition of organization, J. Theor. Biol., 45, 295-304.
97. Atlan, H., 1987, Self-creation of meaning, Phys. Scripta, 36, 563-576.
98. Atlan, H., 1989, Natural complexity and self-creation of meaning, Mind over Matter: Symposium in Honour of Professor Bernhard Witkop (Jerusalem: Israel Academy of Sciences and Humanities).