Biological solutions to transport network design

Proceedings of the Royal Society B: Biological Sciences

Volumn 274, Issue 1623, 2007, Pages 2307-2315

  Bebber, Daniel P ^a   Hynes, Juliet ^b   Darrah, Peter R ^a   Boddy, Lynne ^b   Fricker, Mark D ^a  

^a UNIVERSITY OF OXFORD   (United Kingdom)

^b CARDIFF UNIVERSITY   (United Kingdom)

Author keywords

Adaptive biological networks; Complex systems; Nutrient transport; Weighted planar networks

Indexed keywords

FUNGUS; NATURAL SELECTION; NETWORK DESIGN; NUTRIENT UPTAKE; SAPROTROPHY; TRANSPORT PROCESS; WOODLAND;

ARCHITECTURE; ARTICLE; BIOMEDICINE; CONTROLLED STUDY; EVOLUTIONARY ADAPTATION; FUNGUS HYPHAE; MICROBIAL ACTIVITY; MYCELIUM; NETWORK LEARNING; NONHUMAN; NUTRIENT AVAILABILITY; PHANEROCHAETE; PRIORITY JOURNAL; TRANSPORT KINETICS; TREE; WASTE WATER MANAGEMENT;

ANIMALIA; FUNGI; PHANEROCHAETE VELUTINA;

EID: 34548493650     PISSN: 09628452     EISSN: 14712970     Source Type: Journal    
DOI: 10.1098/rspb.2007.0459     Document Type: Article

References (66)

1. Albert, R. & Barabasi, A. L. 2002 Statistical mechanics of complex networks. Rev. Mod. Phys. 74, 47-97. (doi:10.1103/RevModPhys.74. 47)
2. Banavar, J. R., Maritan, A. & Rinaldo, A. 1999 Size and form in efficient transportation networks. Nature 399, 130-132. (doi:10.1038/20144)
3. Banavar, J. R., Damuth, J., Maritan, A. & Rinaldo, A. 2002 Supply-demand balance and metabolic scaling. Proc. Natl Acad. Sci. USA 99, 10 506-10 509. (doi:10.1073/pnas.162216899)
4. Barrat, A., Barthelemy, M., Pastor-Satorras, R. & Vespignani, A. 2004a The architecture of complex weighted networks. Proc. Natl Acad. Sci. USA 101, 3747-3752. (doi:10.1073/pnas.0400087101)
5. Barrat, A., Barthelemy, M. & Vespignani, A. 2004b Modeling the evolution of weighted networks. Phys. Rev. E 70, 066149.
6. Barrat, A., Barthelemy, M. & Vespignani, A. 2005 The effects of spatial constraints on the evolution of weighted complex networks. J. Stat. Mech. P05003. (doi:10.1088/1742-5468/2005/05/P05003)
7. Barthelemy, M., Barrat, A., Pastor-Satorras, R. & Vespignani, A. 2005 Characterization and modeling of weighted networks. Physica A 346, 34-43. (doi:10.1016/j.physa.2004.08.047)
8. Bebber, D. P., Tlalka, M., Hynes, J., Darrah, P. R., Ashford, A., Watkinson, S. C., Boddy, L. & Fricker, M. D. 2007 Imaging complex nutrient dynamics in mycelial networks. In Fungi in the environment (eds G. Dadd, S. C. Watkinson & P. S. Dyer), pp. 3-21. Cambridge, UK: Cambridge University Press.
9. Beckers, R., Deneubourg, J. L. & Goss, S. 1993 Modulation of trail laying in the ant Lasius niger (Hymenoptera, Formicidae) and its role in the collective selection of a food source. J. Insect Behav. 6, 751-759. (doi:10.1007/BF01201674)
10. Bianconi, G. 2005 Emergence of weight-topology correlations in complex scale-free networks. Europhys. Lett. 71, 1029-1035. (doi:10.1209/epl/i2005-10167-2)
11. Boccaletti, S., Latora, V., Moreno, Y., Chavez, M. & Hwang, D. U. 2006 Complex networks: structure and dynamics. Phys. Lett. 424, 175-308.
12. Boddy, L. 1993 Saprotrophic cord-forming fungi - warfare strategies and other ecological aspects. Mycol. Res. 97, 641-655.
13. Boddy, L. 1999 Saprotrophic cord-forming fungi: meeting the challenge of heterogeneous environments. Mycologia 91, 13-32. (doi:10.2307/3761190)
14. Boddy, L. & Jones, T. H. 2007 Mycelial responses in heterogeneous environments: parallels with macroorganisms. In Fungi in the environment (eds G. Dadd, S. C. Watkinson & P. S. Dyer), pp. 112-158. Cambridge, UK: Cambridge University Press.
15. Buhl, J., Gautrais, J., Sole, R. V., Kuntz, P., Valverde, S., Deneubourg, J. L. & Theraulaz, G. 2004 Efficiency and robustness in ant networks of galleries. Eur. Phys. J. B 42, 123-129. (doi:10.1140/epjb/e2004- 00364-9)
16. Buhl, J., Gautrais, J., Reeves, N., Sole, R. V., Valverde, S., Kuntz, P. & Theraulaz, G. 2006 Topological patterns in street networks of self-organized urban settlements. Eur. Phys. J. B 49, 513-522. (doi:10.1140/epjb/e2006-00085-1)
17. Cairney, J. W. G. 2005 Basidiomycete mycelia in forest soils: dimensions, dynamics and roles in nutrient distribution. Mycol. Res. 109, 7-20. (doi:10.1017/S0953756204001753)
18. Cardillo, A., Scellato, S., Latora, V. & Porta, S. 2006 Structural properties of planar graphs of urban street patterns. Phys. Rev. D 73, 066107.
19. Carey, V. J., Gentry, J., Whalen, E. & Gentleman, R. 2005 Network structures and algorithms in Bioconductor. Bioinformatics 21, 135-136. (doi:10.1093/bioinformatics/bth458)
20. Crucitti, P., Latora, V. & Porta, S. 2006 Centrality measures in spatial networks of urban streets. Phys. Rev. D 73, 036125.
21. Davidson, F. A., Sleeman, B. D., Rayner, A. D. M., Crawford, J. W. & Ritz, K. 1996 Context-dependent macroscopic patterns in growing and interacting mycelial networks. Proc. R. Soc. B 263, 873-880. (doi:10.1098/rspb.1996.0129)
22. Deneubourg, J. L., Goss, S., Franks, N. & Pasteels, J. M. 1989 The blind leading the blind - modeling chemically mediated army ant raid patterns. J. Insect Behav. 2, 719-725. (doi:10.1007/BF01065789)
23. Dorigo, M., Di Caro, G. & Gambardella, L. M. 1999 Ant algorithms for discrete optimization. Artif. Life 5, 137-172. (doi:10.1162/106454699568728)
24. Durand, M. 2006 Architecture of optimal transport networks. Phys. Rev. D 73, 016116.
25. Durand, M. 2007 Structure of optimal transport networks subject to a global constraint. Phys. Rev. Lett. 98, 088701. (doi:10.1103/PhysRevLett.98.088701)
26. Falconer, R. E., Bown, J. L., White, N. A. & Crawford, J. W. 2005 Biomass recycling and the origin of phenotype in fungal mycelia. Proc. R. Soc. B 272, 1727-1734. (doi:10.1098/rspb.2005.3150)
27. Ferguson, B. A., Dreisbach, T. A., Parks, C. G., Filip, G. M. & Schmitt, C. L. 2003 Coarse-scale population structure of pathogenic Armillaria species in a mixed-conifer forest in the blue mountains of northeast Oregon. Can. J. Forest Res. 33, 612-623. (doi:10.1139/x03-065)
28. Franks, N. R., Gomez, N., Goss, S. & Deneubourg, J. L. 1991 The blind leading the blind in army ant raid patterns - testing a model of self-organization. J. Insect Behav. 4, 583-607. (doi:10.1007/BF01048072)
29. Freeman, L. C. 1977 Set of measures of centrality based on betweenness. Sociometry 40, 35-41. (doi:10.2307/3033543)
30. Fricker, M. D., Tlalka, M., Bebber, D., Tagaki, S., Watkinson, S. C. & Darrah, P. R. 2007 Fourier-based spatial mapping of oscillatory phenomena in fungi. Fungal Genet. Biol. (doi:10.1016/j.fgb.2007.02.012)
31. Friedman, J. H. 1984 A variable span smoother. Technical report no. LCS5, Stanford University.
32. Gadd, G. M. (ed.) 2006 Fungi in biogeochemical cycles. Cambridge, UK: Cambridge University Press.
33. Gastner, M. T. & Newman, M. E. J. 2006a Optimal design of spatial distribution networks. Phys. Rev. D 74, 016 117.
34. Gastner, M. T. & Newman, M. E. J. 2006b Shape and efficiency in spatial distribution networks. J. Stat. Mech. P01015. (doi:10.1088/1742-5468/2006/01/P01015)
35. Gastner, M. T. & Newman, M. E. J. 2006c The spatial structure of networks. Eur. Phys. J. B 49, 247-252. (doi:10.1140/epjb/e2006- 00046-8)
36. Glass, N. L., Rasmussen, C., Roca, M. G. & Read, N. D. 2004 Hyphal homing, fusion and mycelial interconnectedness. Trends Microbiol. 12, 135-141. (doi:10.1016/j.tim.2004.01.007)
37. Gorman, S. P. & Kulkarni, R. 2004 Spatial small worlds: new geographic patterns for an information economy. Environ. Plann. B 31, 273-296. (doi:10.1068/b29118)
38. Gross, J. L. & Yellen, J. 2005 Graph theory and its applications. London, UK: Chapman and Hall.
39. Haggett, P. & Chorley, R. J. 1969 Network analysis in geography. London, UK: Arnold.
40. Helbing, D., Armbruster, D., Mikhallov, A. S. & Lefeber, E. 2006 Information and material flows in complex networks. Physica A 363, xi-xviii. (doi:10.1016/j.physa.2006.01.042)
41. Kampichler, C., Rolschewski, J., Donnelly, D. P. & Boddy, L. 2004 Collembolan grazing affects the growth strategy of the cord-forming fungus hypholoma fasciculare. Soil Biol. Biochem. 36, 591-599. (doi:10.1016/j.soilbio.2003.12.004)
42. Kost, C., De Oliveira, E. G., Knoch, T. A. & Wirth, R. 2005 Spatio-temporal permanence and plasticity of foraging trails in young and mature leaf-cutting ant colonies (Atta spp.). J. Trop. Ecol. 21, 677-688. (doi:10.1017/S0266467405002592)
43. Lammer, S., Gehlsen, B. & Helbing, D. 2006 Scaling laws in the spatial structure of urban road networks. Physica A 363, 89-95. (doi:10.1016/j.physa.2006.01.051)
44. Latora, V. & Marchiori, M. 2001 Efficient behavior of small-world networks. Phys. Rev. Lett. 87, 1-4. (doi:10.1103/PhysRevLett.87. 198701)
45. Latora, V. & Marchiori, M. 2003 Economic small-world behavior in weighted networks. Eur. Phys. J. B 32, 249-263. (doi:10.1140/epjb/e2003-00095-5)
46. Lindahl, B. O., Taylor, A. F. S. & Finlay, R. D. 2002 Defining nutritional constraints on carbon cycling in boreal forests - towards a less 'phytocentric' perspective. Plant Soil 242, 123-135. (doi:10.1023/A:1019650226585)
47. Money, N. P. 2002 Mushroom stem cells. Bioessays 24, 949-952. (doi:10.1002/bies.10160)
48. Nakagaki, T., Yamada, H. & Toth, A. 2000 Maze-solving by an amoeboid organism. Nature 407, 470. (doi:10.1038/35035159)
49. Nakagaki, T., Kobayashi, R., Nishiura, Y. & Ueda, T. 2004a Obtaining multiple separate food sources: behavioural intelligence in the Physarum plasmodium. Proc. R. Soc. B 271, 2305-2310. (doi:10.1098/rspb.2004.2856)
50. Nakagaki, T., Yamada, H. & Hara, M. 2004b Smart network solutions in an amoeboid organism. Biophys. Chem. 107, 1-5. (doi:10.1016/S0301-4622(03)00189-3)
51. Newman, M. E. J. 2003 The structure and function of complex networks. SIAM Rev. 45, 167-256. (doi:10.1137/S003614450342480)
52. R Development Core Team 2006 A language and environment for statistical computing. Vienna, Germany: R foundation for statistical computing.
53. Risau, W. 1997 Mechanisms of angiogenesis. Nature 386, 671-674. (doi:10.1038/386671a0)
54. Salathe, M., May, R. M. & Bonhoeffer, S. 2005 The evolution of network topology by selective removal. J. R. Soc. Interface 2, 533-536. (doi:10.1098/rsif.2005.0072)
55. Scellato, S., Cardillo, A., Latora, V. & Porta, S. 2006 The backbone of a city. Eur. Phys. J. B 50, 221-225. (doi:10.1140/epjb/e2006- 00066-4)
56. Smith, M. L., Bruhn, J. N. & Anderson, J. B. 1992 The fungus Armillaria bulbosa is among the largest and oldest living organisms. Nature 356, 428-431. (doi:10.1038/356428a0)
57. Sumpter, D. J. T. & Pratt, S. C. 2003 A modelling framework for understanding social insect foraging. Behav. Ecol. Sociobiol. 53, 131-144.
58. Tero, A., Kobayashi, R. & Nakagaki, T. 2006 Physarum solver: a biologically inspired method of road-network navigation. Physica A 363, 115-119. (doi:10.1016/j.physa.2006.01.053)
59. Thompson, W. & Rayner, A. D. M. 1982 Structure and development of mycelial cord systems of Phanerochaete laevis in soil. Trans. Br. Mycol. Soc. 78, 193-200.
60. Tlalka, M., Bebber, D., Darrah, P. R., Watkinson, S. C. & Fricker, M. D. 2007 Emergence of self-organised oscillatory domains in fungal mycelia. Fungal Genet. Biol. (doi:10.1016/j.fgb.2007.02.013)
61. Watkinson, S. C., Bebber, D., Darrah, P. R., Fricker, M. D., Tlalka, M. & Boddy, L. 2006 The role of wood decay fungi in the carbon and nitrogen dynamics of the forest floor. In Fungi in biogeochemical cycles (ed. G. M. Gadd), pp. 151-181. Cambridge, UK: Cambridge University Press.
62. Weitz, J. S., Benfey, P. N. & Wingreen, N. S. 2007 Evolution, interactions, and biological networks. PLoS Biol. 5, e11. (doi:10.1371/journal.pbio.0050011)
63. Wells, J. M., Donnelly, D. P. & Boddy, L. 1997 Patch formation and developmental polarity in mycelial cord systems of Phanerochaete velutina on a nutrient-depleted soil. New Phytol. 136, 653-665. (doi:10.1046/j.1469-8137.1997.00776.x)
64. West, G. B., Brown, J. H. & Enquist, B. J. 1997 A general model for the origin of allometric scaling laws in biology. Science 276, 122-126. (doi:10.1126/science.276.5309.122)
65. West, G. B., Brown, J. H. & Enquist, B. J. 1999a The fourth dimension of life: fractal geometry and allometric scaling of organisms. Science 284, 1677-1679. (doi:10.1126/science.284.5420.1677)
66. West, G. B., Brown, J. H. & Enquist, B. J. 1999b A general model for the structure and allometry of plant vascular systems. Nature 400, 664-667. (doi:10.1038/23251)