Abstract
Plasmodium of Physarum polycephalum is a single cell visible by unaided eye. During its foraging behavior the cell spans spatially distributed sources of nutrients with a protoplasmic network. The geometrical structure of the protoplasmic networks allows the plasmodium to optimize transport of nutrients between remote parts of its body. Assuming major Mexican cities are sources of nutrients that need to be distributed across Mexico, how much does the structure of the Physarum protoplasmic network correspond to the structure of Mexican Federal highway network? To address the issue we undertook a series of laboratory experiments with living P. polycephalum. We represent geographical locations of major cities (19 locations) by oat flakes, place a piece of plasmodium in the area corresponding to Mexico city, record the plasmodium’s foraging behavior and extract topology of the resulting nutrient transport networks. Results of our experiments show that the protoplasmic network formed by Physarum is isomorphic, subject to limitations imposed, to a network of principal highways. Ideas and results in the paper may contribute towards future developments in bio-inspired road planning.
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Order: Physarales, subclass: Myxogastromycetidae, class: Myxomecetes.
National Institute of Statistical and Geographic (INEGI Spanish abbreviation). http://inegi.org.mx/.
Asda’s Smart Price Porridge Oats.
Source: Guía Roji “Por las Carreteras de México 2011”, 17a. Edition. Web site: http://www.guiaroji.com.mx.
You can see an approximation of these simulations from http://www.youtube.com/watch?v=OmwtPR2cV-4.
References
Achenbach F, Weisenseel MH (1981) Ionic currents traverse the slime mould Physarum. Cell Biol Int Rep 5:375–379
Adamatzky A (2007) From reaction-diffusion to Physarum computing. Invited talk at Los Alamos Lab workshop “Unconventional Computing: Quo Vadis?” March 2007, Santa Fe, NM
Adamatzky A (2009a) Developing proximity graphs by Physarum polycephalum: does the plasmodium follow the Toussaint hierarchy? Parallel Process Lett 19:105–127
Adamatzky A (2009b) If BZ medium did spanning trees these would be the same trees as Physarum built. Phys Lett A 373:952–956
Adamatzky A (2009c) Hot ice computer. Phys Lett A 374:264–271
Adamatzky A (2010a) Physarum machines: making computers from slime mould. World Scientific, Hackensack
Adamatzky A (2010b) Routing Physarum with repellents. Eur Phys J E Soft Matter Biol Phys 31:403–410
Adamatzky A, Jones J (2010) Road planning with slime mould: if Physarum built motorways it would route M6/M74 through Newcastle. Int J Bifurcat Chaos (in print). http://arxiv.org/abs/0912.3967
Adamatzky A, De Lacy Costello B, Asai T (2005) Reaction-diffusion computers. Elsevier, Amsterdam
Billiot JM, Corset F, Fontenas E (2010) Continuum percolation in the relative neighborhood graph. arXiv:1004.5292
Carlile MJ (1970) Nutrition and chemotaxis in the myxomycete Physarum polycephalum: the effect of carbohydrates on plasmodium. J Gen Microbiol 63:221–226
Chet I, Naveh A, Henis Y (1977) Chemotaxis of Physarum polycephalum towards carbohydrates, amino acids and nucleotides. J Gen Microbiol 102:145–148
Coman RD (1940) Additional observations on positive and negative chemotaxis. Experiments with a myxomycete. Arch Pathol 29:220–228
Dorigo M, Stutzle T (2004) Ant colony optimization. MIT Press, Cambridge
Gabriel KR, Sokal RR (1969) A new statistical approach to geographic variation analysis. Syst Zool 18:259–278
Jaromczyk JW, Toussaint GT (1992) Relative neighborhood graphs and their relatives. Proc IEEE 80:1502–1517
Jarrett TC, Ashton DJ, Fricker M, Johnson NF (2006) Interplay between function and structure in complex networks. Phys Rev E 74:026116
Kincaid RL, Mansour E (1978) Chemotaxis toward carbohydrates and amino acids in Physarum polycephalum. Exp Cell Res 116:377–385
Kirkpatrick DG, Radke JD (1985) A framework for computational morphology. In: Toussaint G (ed) Computational geometry. Elsevier, Amsterdam, pp 217–248
Knowles DJC, Carlile MJ (1978) The chemotactic response of plasmodia of the myxomycete Physarum polycephalum to sugars and related compounds. J Gen Microbiol 108:17–25
Li X-Y (2004) Application of computation geometry in wireless networks. In: Cheng X, Huang X, Du D-Z (eds) Ad hoc wireless networking. Kluwer Academic Publishers, Dordrecht, pp 197–264
Matula DW, Sokal RR (1984) Properties of Gabriel graphs relevant to geographical variation research and the clustering of points in the same plane. Geogr Anal 12:205–222
McClory A, Coote JG (1985) The chemotactic response of the myxomycete Physarum polyhcepalum to amino acids, cyclic nucleotides and folic acid. FEMS Microbiol Lett 26:195–200
Muhammad RB (2007) A distributed graph algorithm for geometric routing in ad hoc wireless networks. J Netw 2:49–57
Nakagaki T, Yamada H, Ueda T (1999) Modulation of cellular rhythm and photoavoidance by oscillatory irradiation in the Physarum plasmodium. Biophys Chem 82:23–28
Nakagaki T, Yamada H, Toth A (2001) Path finding by tube morphogenesis in an amoeboid organism. Biophys Chem 92:47–52
Reyes DR, Ghanem MG, George M (2002) Glow discharge in micro fluidic chips for visible analog computing. Lab Chip 1:113–116
Saigusa T, Tero A, Nakagaki T, Kuramoto Y (2008) Amoebae anticipate periodic events. Phys Rev Lett 100:018101
Santi P (2005) Topology control in wireless ad hoc and sensor networks. Wiley, New York
Schumann A, Adamatzky A (2009) Physarum spatial logic. In: Proceedings of the first international symposium on symbolic and numeric algorithms for scientific computing, September 26–29, 2009. Timisoara, Romania
Shirakawa T, Adamatzky A, Gunji Y-P, Miyake Y (2009) On simultaneous construction of Voronoi diagram and Delaunay triangulation by Physarum polycephalum. Int J Bifurcat Chaos 19:3109–3117
Song W-Z, Wang Y, Li X-Y (2004) Localized algorithms for energy efficient topology in wireless ad hoc networks. In: Proceedings of the MobiHoc, May 24–26, 2004. Roppongi, Japan
Sridharan M, Ramasamy AMS (2010) Gabriel graph of geomagnetic Sq variations. Acta Geophys. doi:10.2478/s11600-010-0004-y
Tero A, Kobayashi R, Nakagaki T (2006) Physarum solver: a biologically inspired method of road-network navigation. Physica A 363:115–119
Toussaint GT (1980) The relative neighborhood graph of a finite planar set. Pattern Recognit 12:261–268
Tsuda S, Aono M, Gunji Y-P (2004) Robust and emergent Physarum logical-computing. Biosystems 73:45–55
Tsuda S, Zauner K-P, Gunji Y-P (2007) Robot control with bio-logical cells. BioSystems 87:215–223
Ueda T, Muratsugu M, Kurihara K, Kobatake Y (1976) Chemotaxis in Physarum polycephalum: effects of chemicals on isometric tension of the plasmodial strand in relation to chemotactic movement. Exp Cell Res 100:337–344
Wan P-J, Yi C-W (2007) On the longest edge of Gabriel graphs in wireless ad hoc networks. IEEE Trans Parallel Distrib Syst 18:111–125
Watanabe D (2005) A study on analyzing the road network pattern using proximity graphs. J City Plan Inst Jpn 40:133–138
Watanabe D (2008) Evaluating the configuration and the travel efficiency on proximity graphs as transportation networks. Forma 23:81–87
Acknowledgments
We are grateful to referees for their helpful comments and extensive editing of the text. Genaro J. Martínez thanks DGAPA-UNAM and EPSRC for support. Authors express their gratitude to Mexican government and INEGI for providing the last census information and to Natalia Volkow Fernández, and Guía Roji for permission to use additional road maps.
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Adamatzky, A., Martínez, G.J., Chapa-Vergara, S.V. et al. Approximating Mexican highways with slime mould. Nat Comput 10, 1195–1214 (2011). https://doi.org/10.1007/s11047-011-9255-z
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DOI: https://doi.org/10.1007/s11047-011-9255-z