On coupled oscillator dynamics and incident behaviour patterns in slime mould Physarum polycephalum: emergence of wave packets, global streaming clock frequencies and anticipation of periodic stimuli

References

• A. Adamatzky, Physarum machines: Encapsulating reaction--diffusion to compute spanning tree, Die Naturwiss. 94(12) (2007), pp. 975–980. Available at doi:10.1007/s00114-007-0276-5.
   PubMed Web of Science ®Google Scholar
• A. Adamatkzy, Physarum Machines: Computers from Slime Mould, World Scientific, London, 2010.
   Google Scholar
• C. Alexopoulos, Periodic phenomena in Physarum, in The Biology of Physarum and Didymium, Cell Biology: A Series of Monographs, Vol. 1, Academic Press, London, 1982.
   Google Scholar
• C. Alexopoulos, Plasmodial structure and motility, in The Biology of Physarum and Didymium, Cell Biology: A Series of Monographs, Vol. 1, Academic Press, New York, 1982.
   Google Scholar
• J Blakely, Chaos synchronization with mismatch-induced lag or anticipation, Ch. 7, Nova Science Publishers, New York, 2007.
   Google Scholar
• E. Blakey, Towards non-quantum implementations of Shor’s factorization algorithm, Int. J. Unconventional Comput. 10(5–6) (2013), pp. 1–15.
   Web of Science ®Google Scholar
• J. Collier, Simulating autonomous anticipation: The importance of Dubois’ conjecture, BioSystems 91(2) (2008), pp. 346–354. Available at doi:10.1016/j.biosystems.2007.05.011.
   PubMed Web of Science ®Google Scholar
• V. Devi and E. Guttes, Macromolecular syntheses and mitosis in uv-irradiated plasmodia of Physarum polycephalum, Radiat. Res. 51 (1972), pp. 410–430.
   PubMed Web of Science ®Google Scholar
• V. Devi, E. Guttes, and S. Guttes, Exffects of ultraviolet light on mitosis in Physarum polycephalum, Exp. Cell Res. 50(3) (1968), pp. 589–598.
   PubMed Web of Science ®Google Scholar
• M. Dietrich, Explaining the pulse of protoplasm: The search for molecular mechanisms of protoplasmic streaming, J. Integr. Plant Biol. 57(1) (2015), pp. 14–22.
   PubMed Web of Science ®Google Scholar
• D.M. Dubois, Generation of fractals from incursive automata, digital diffusion and wave equation systems, BioSystems 43(2) (1997), pp. 97–114. Available at doi:10.1016/S0303-2647(97)01692-4.
   PubMed Web of Science ®Google Scholar
• D. Dubois, Mathematical foundations of discrete and functional systems with strong and weak anticipations, Lecture Notes in Artificial Intelligence, Vol. 2684, Springer, London, 2003, pp. 110–132.
   Google Scholar
• J. Fingerle and D. Gradmann, Electrical properties of the plasma membrane of microplasmodia of Physarum polycephalum, J. Membr. Biol. 68 (1982), pp. 67–77.
   PubMed Web of Science ®Google Scholar
• E. Gale, A. Adamatzky, and B. Costello, Slime mould memristors, BioNanoScience 5(1) (2013), pp. 1–8.
   Web of Science ®Google Scholar
• G. Gopu, R. Neelaveni, K. Porkumaran, and M. Shekar, Investigation of digestive system disorders with electrogastrogram using wavelet transform denoising, Int. J. Mach. Intel. 2(1) (2010), pp. 16–28.
   Google Scholar
• K. Gotoh and K. Kuroda, Motive force of cytoplasmic streaming during plasmodial mitosis of Physarum polycephalum, Cell Motil. 2(2) (2005), pp. 173–181.
   Google Scholar
• K. Götz von Olenhusen and K. Wohlfarth-Bottermann, Effects of caffiene and D2O on persistence and de novo generation of intrinsic oscillatory contraction automaticity in Physarum, Cell Tissue Res. 197 (1979), pp. 479–499.
   PubMed Web of Science ®Google Scholar
• W. Hassler, M. Kim, W. Chey, V. Stevenson, B. Stein, and C. Owyang, Central cholinergic and alpha-adrenergic mediation of gastric slow wave dysrhythmias evoked during motion sickness, Am. J. Physiol. 268(4 pt 1) (1995), pp. G539–547.
   Google Scholar
• J. Jeter, I. Cameron, N. Smith, W. Steffens, and J. Wille, Cell cycle fluctuations in concentration of various elements in cytoplasm and in nucleus/chromatin of Physarum polycephalum, J. Cell Biol. 35(137) (1982), pp. 47–62.
   Google Scholar
• J. Jones, The emergence and dynamical evolution of complex transport networks from simple low-level behaviours, Int. J. Unconventional Comput. 6 (2010), pp. 125–144.
   Web of Science ®Google Scholar
• J. Jones, From Pattern Formation to Material Computation: Multi-agent Modelling of Physarum Polycephalum, Vol. 15, Springer, New York, 2015.
   Google Scholar
• J. Jones and A. Adamatzky, Emergence of self-organized amoeboid movement in a multi-agent approximation of Physarum polycephalum, Bioinspiration Biomimetics 7(1) (2012), p. 016009. Available at http://stacks.iop.org/1748-3190/7/i=1/a=016009.
   Google Scholar
• N. Kamiya, Protoplasmic streaming, Protoplasmatologica 8(3a) (1959), pp. 1–99.
   Google Scholar
• N. Kamiya and S. Abe, Bioelectric phenomena in the myxomycete plasmodium and their relation to protoplasmic flow, J. Colloid Sci. 5(2) (1950), pp. 149–163.
   Google Scholar
• T. Kato and Y. Tomomura, Ca2\textsuperscript{+}-sensitivity of actomyosin ATPase purified from Physarum polycephalum, J. Biochem. 77(6) (1975), pp. 1127–1134.
   PubMed Web of Science ®Google Scholar
• S. Kauffman, Measuring a mitotic oscillator: The arc discontinuity, Bull. Math. Biol. 36(2) (1974), pp. 171–182.
   PubMed Web of Science ®Google Scholar
• H. Kawamichi, Y. Zhang, M. Hino, A. Nakamura, H. Tanaka, and L. Farkas, Calcium inhibition of Physarum myosin as examined by the recombinant heavy mero-myosin, Adv. Exp. Med. Biol. 592 (2007), pp. 265–272.
   PubMed Web of Science ®Google Scholar
• U. Kishimoto, Rhthmicity in the protoplasmic streaming of slime mold Physarum polycephalum, J. Gen. Phys. 41 (1958), pp. 1205–1224.
   PubMed Web of Science ®Google Scholar
• K. Kohama, Inhibitory mode for ca2+ regulation, Trends Pharmacol. Sci 11 (1990), pp. 433–435.
   PubMed Web of Science ®Google Scholar
• R. Kuroda, S. Hatano, Y. Hiramoto, and H. Kuroda, Change of cytosolic ca-ion concentration in the contraction and relaxation cycle of physarum microplasmodia, in Cell Dynamics, M. Tazawa, ed., Protoplasma, Vol. 1, Springer, Vienna, 1989, pp. 72–80.
   Google Scholar
• J. Liang and J. Chen, What can be measured from surface electrogastrography? Digestive Diseases Sci. 42(7) (1997), pp. 1331–1343.
   PubMed Web of Science ®Google Scholar
• L. Matthews, Calcium ion regulation in caffiene derived microplasmodia of Physarum polycephalum, J. Cell Biol. 72 (1977), pp. 502–506.
   PubMed Web of Science ®Google Scholar
• R. Mayne, Biology of the Physarum polycephalum plasmodium: Preliminaries for unconventional computing, in Advances in Physarum Machines: Sensing and Computing with Slime Mould, Springer, 2016. pp. 3–22. Available at 10.1007/978-3-319-26662-6\_1.
   Google Scholar
• R. Mayne and A. Adamatzky, On the computing potential of intracellular vesicles, Plos One 10(10) (2015), p. e0139617. Available at doi:10.1371/journal.pone.0139617.
   Google Scholar
• R. Mayne, A. Adamatzky, and J. Jones, On the role of the plasmodial cytoskeleton in facilitating intelligent behaviour in slime mould Physarum polycephalum, Communicative Integr. Biol. 8(4) (2015), p. e1059007.
   Google Scholar
• R. Meyer, and W. Stockem, Studies on microplasmodia of physarum polycephalum v: Electrical activity of different types of microplasmodia and macroplasmodia 3(4) (1979), pp. 321–330.
   Google Scholar
• S. Nakata, K. Kashima, H. Kitahata, and Y. Mori, Phase wave between two oscillators in the photosensitive belousovzhabotinsky reaction depending on the difference in the illumination time, J. Phys. Chem. A 144(34) (2010), pp. 9124–9129.
   Web of Science ®Google Scholar
• P. Nair and G. Zabka, Light quality and sporulation in myxomycetes with special reference to a red, far-red reversible reaction, Mycopathologia et Mycologia Applicata 26(1) (1965), pp. 123–128.
   PubMedGoogle Scholar
• K. Ozaki and S. Hatano, Mechanism of regulation of actin polymerization by Physarum profilin, J. Cell Biol. 98(29) (1984), pp. 1919–1925.
   PubMed Web of Science ®Google Scholar
• J. Park, P. Rhee, H. Kim, J. Lee, Y. Kim, J. Kim, J. Rhee, E. Kang, and B. Yu, Increased beta-adrenergic sensitivity correlates with visceral hypersensitivity in patients with constipation-predominant irritable bowel syndrome, Digestive Diseases Sci. 50(8) (2005), pp. 1454–1460.
   PubMed Web of Science ®Google Scholar
• Y. Pershin, S. La Fontaine, and M. Di Ventra, Memristive model of amoeba learning, Phys. Rev. E. 80 021926 Available at doi: 10.1103/PhysRevE.80.021926
   PubMed Web of Science ®Google Scholar
• A. Pisarchik, R. Jaimes-Reátegui, and J. García-López, Synchronization of coupled bistable chaotic systems: Experimental study, Philos. Trans. R. Soc. A 366 (2008), pp. 459–473.
   Web of Science ®Google Scholar
• C.R. Reid, T. Latty, A. Dussutour, and M. Beekman, Slime mold uses an externalized spatial "memory" to navigate in complex environments, Proc. Natl. Acad. Sci. USA 109(43) (2012), pp. 17490–17494. Available at doi:10.1073/pnas.1215037109.
   PubMed Web of Science ®Google Scholar
• E. Ridgway, and A. Durham, Oscillations of calcium ion concentrations of Physarum polycephalum, J. Cell Biol. 69 (1976), pp. 223–226.
   PubMed Web of Science ®Google Scholar
• W. Sachsenmaier, J. Blessing, B. Brauser, and K. Hansen, Protoplasmic streaming in Physarum polycephalum: Observation of spontaneous and induced changes of the oscillatory pattern by photometric and fluorometric studies, Protoplasma 77 (1973), pp. 381–396.
   Web of Science ®Google Scholar
• T. Saigusa, A. Tero, T. Nakagaki, and Y. Kuramoto, Amoebae anticipate periodic events, Phys. Rev. Lett. 100(1) (2008), p. 018101. Available at doi:10.1103/PhysRevLett.100.018101.
   Web of Science ®Google Scholar
• H. Sauer, Developmental biology of Physarum, Development and Cell Biology, Vol. 11, Cambridge University Press, Cambridge, 1982.
   Google Scholar
• A. Schumann, and A. Adamatzky, The double-slit experiment with physarum polycephalum and p-adic valued probabilities and fuzziness, Int. J. Gen. Syst. 44(3) (2015), pp. 392–408.
   Web of Science ®Google Scholar
• R. Silver, P. Balsam, M. Butler, and J. LeSauter, Food anticipation depends on oscillators and memories in both body and brain, Physiol. Behav. 104(4) (2011), pp. 562–571.
   PubMed Web of Science ®Google Scholar
• P. Simons, The role of electricity in plant movements, New Phytol. 87(1) (1981), pp. 11–37. Available at doi:10.1111/j.1469-8137.1981.tb01687.x.
   Web of Science ®Google Scholar
• D.a. Smith and R. Saldana, Model of the Ca2+ oscillator for shuttle streaming in Physarum polycephalum, Biophys. J. 61 (1992), pp. 368–380.
   PubMed Web of Science ®Google Scholar
• C. Starostzik and W. Marwan, A photoreceptor with characteristics of phytochrome triggers sporulation in the true slime mould Physarum polycephalum, FEBS Lett. 370 (1995), pp. 146–148.
   PubMed Web of Science ®Google Scholar
• D. Stoleru, Y. Peng, J. Agosto, and M. Rosbash, Coupled oscillators control morning and evening locomotor behaviour of Drosophila, Nature 431 (2004), pp. 862–869.
   PubMed Web of Science ®Google Scholar
• A. Takamatsu, T. Fujii, and I. Endo, Control of interaction strength in a network of the true slime mold by a microfabricated structure, BioSystems 55 (2000), pp. 33–38.
   PubMed Web of Science ®Google Scholar
• A. Takamatsu, and T. Fujii, Construction of a living coupled oscillator system of plasmodial slime mold by a microfabricated structure, Sensors Update 10(1) (2002), pp. 33–46.
   Google Scholar
• S. Takagi and T. Ueda, Emergence and transitions of dynamic patterns of thickness oscillation of the plasmodium of the true slime mold Physarum polycephalum, Physica D 237 (2008), pp. 420–427.
   Web of Science ®Google Scholar
• S. Takagi and T. Ueda, Annihilation and creation of rotating waves by a local light pulse in a protoplasmic droplet of the Physarum plasmodium, Phys. D: Nonlinear Phenom. 239(11) (2010), pp. 873–878.
   Web of Science ®Google Scholar
• S. Tsuda and J. Jones, The emergence of synchronization behavior in Physarum polycephalum and its particle approximation, Biosystems 103 (2010), pp. 331–341.
   PubMed Web of Science ®Google Scholar
• T. Ueda and K. Götz Von Olenhusen, Replacement of endoplasm with artificial media in plasmodial strands of Physarum polycephalum: Effects on contractility and morphology, Exp. Cell Res. 116 1(1978), pp. 55–62.
   PubMed Web of Science ®Google Scholar
• T. Ueda, K. Matsumoto, T. Akitaya, and Y. Kobatake, Spatial and temporal organization of intracellular adenine nucleotides and cyclic nucleotides in relation to rhythmic motility in Physarum plasmodium, Exp. Cell Res. 162 (1986), pp. 486–494.
   PubMed Web of Science ®Google Scholar
• K. Vol Olenhusen and K. Wohlfarth-Bottermann, Evidence for actin transformation during the contraction-relaxation cycle of cytoplasmic actomyosin: Cycle blockade by phalloidin injection, Cell Tissue Res. 196 3(1979), pp. 455–470.
   PubMed Web of Science ®Google Scholar
• K. Wohlfarth-Bottermann, Tensiometric demonstration of endogenous oscillating contractions in plasmodia of Physarum polycephalum, Zeitschrift für Pflanzenphysiologie 76 (1975), pp. 14–27.
   Web of Science ®Google Scholar
• K.E. Wohlfarth-Bottermann, Oscillatory contraction activity in Physarum, J. Exp. Biol. 81 (1979), pp. 15–32.
   PubMed Web of Science ®Google Scholar
• K. Wohlfarth-Bottermann and K. Götz Von Olenhusen, Oscillating contractios in protoplasmic strands of Physarum: Effects of external ca-depletion and ca-antagonistic drugs on contraction automaticity, Cell Biol. Int. 1 (1977), pp. 239–247.
   Web of Science ®Google Scholar
• Y.Yoshimoto, and N.Kamiya, Studies on contraction rhythm of the plasmodial strand, Protoplasma. 95 (1978), pp. 89–99.
   Web of Science ®Google Scholar
• Y. Yoshimoto, F. Matsumura, and N. Kamiya, Simultaneous oscillations of ca2+ efflux and tension generation in the permelized plasmodial strand of Physarum, Cell Motil. 1(4) (1981), pp. 433–434.
   PubMedGoogle Scholar
• S. Yoshiyama, M. Ishigami, A. Nakamura, and K. Kohama, Calcium wave for cytoplasmic streaming of Physarum polycephalum, Cell Biol. Int. 34(1) (2010), pp. 35–40. Available at doi:10.1042/CBI20090158.
   Web of Science ®Google Scholar
• Y. Yoshimoto, T. Sakai, and N. Kamiya, Atp oscillation in Physarum plasmodium, Protoplasma 109 (1981), pp. 159–168.
   Web of Science ®Google Scholar