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Dynamic mechanism of maze-solving and cell architecture in Physarum

Research Project

Project/Area Number 13831001
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeSingle-year Grants
Section一般
Research InstitutionHOKKAIDO UNIVERSITY

Principal Investigator

NAKAGAKI Toshiyuki  Hokkaido Univ., Res. Inst. For Electronic Science, Associate prof., 電子科学研究所, 助教授 (70300887)

Co-Investigator(Kenkyū-buntansha) UEDA Tetsuo  Hokkaido Univ., Res. Inst. For Electronic Science, Prof., 電子科学研究所, 教授 (20113524)
Project Period (FY) 2001 – 2002
Project Status Completed (Fiscal Year 2002)
Budget Amount *help
¥3,600,000 (Direct Cost: ¥3,600,000)
Fiscal Year 2002: ¥1,200,000 (Direct Cost: ¥1,200,000)
Fiscal Year 2001: ¥2,400,000 (Direct Cost: ¥2,400,000)
KeywordsPhysarum / cellular computation / maze / self-organization / amoeboid movement / optimization / biological rhythm
Research Abstract

We reported that an amoeboid organism can solve a sort of optimization problem by using pattern formation of cellular rhythms.
We presented evidence that the giant amoeboid organism, the true slime mold, constructed a network appropriate for maximizing nutrient uptake. The body of the plasmodium of Physarum polycephalum contains a network of tubular elements by means of which nutrients and chemical signals circulate through the organism. When food pellets were presented at different points on the plasmodium it accumulated at each pellet with a few tubes connecting the plasmodial concentrations. The geometry of the network depended on the positions of the food sources. Statistical analysis showed that the network geometry met the multiple requirements of a smart network : short total length of tubes, close connections among all the branches (a small number of transit food-sites between any two food-sites) and tolerance of accidental disconnection of the tubes. These findings indicate that the plasmodium can achieve a better solution to the problem of network configuration than is provided by the shortest connection of Steiner's minimum tree.
Morphogenesis of the tube structure is induced depending on spatio-temporal patterns of cellular rhythms including mechanical, biochemical and electrical oscillations. Namely, geometrical morphology of the network is determined by the oscillation patterns. Chemical stimulation of the food to the organism leads to transition of the oscillation patterns since slight changes in oscillation frequency and cellular stiffness are induced around the stimulated site. Mechanism of the path finding by the organism is proposed in terms of pattern formation of the cellular rhythms. Along this line, a mathematical model for self-organization of transport network was proposed and discussed.

Report

(3 results)
  • 2002 Annual Research Report   Final Research Report Summary
  • 2001 Annual Research Report
  • Research Products

    (24 results)

All Other

All Publications (24 results)

  • [Publications] Yamada, H., Nakagaki, T.: "Oscillation patterns in cytoplasmic networks of the Physarum plasmodium"Proceeding of Traffic and Granular Flow 2001. 92. 47-52 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] 中垣俊之: "粘菌の流路ネットワーク形成と細胞リズム"第17回生体・生理工学シンポジウム論文集. 373-376 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] 中垣俊之: "生物専攻課程に数理生物学を"数学のたのしみ. 30. 43-48 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] 中垣俊之: "To be stationary or oscillatory, that is a question?"日本時間生物学会会誌. 8. 32-37 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] 中垣俊之: "真正粘菌変形体の運動とゾルゲル流路ネットワークの生理"京都大学数理解析研究所講究録. 1305. 1-7 (2003)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] 中垣俊之: "真正粘菌変形体の運動と形態形成に関する数理モデル"京都大学数理解析研究所講究録. 1305. 8-14 (2003)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] Yamada, H., Nakagaki, T.: "Oscillation patterns in cytoplasmic networks of the Physarum plasmodium"Proceeding of Traffic and Granular Flow 2001. 92. 47-52 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] T. Nakagaki: "Flow network and Cellular rhythm in Physarum"Proceeding of 17^<th> Symposium on SETTAI-SEIRI-KOGAKU. in Japanese. 373-376 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] T. Nakagaki: "Mathematical physiology for undergraduate students in Biology department"SUGAKU NO TANOSHIMI. 30. 43-48 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] T. Nakagaki: "To be stationary or oscillatory, that is a question?"NIHON JIKAN SEIBUTU GAKKAISI. 8. 32-37 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] T. Nakagaki, R. Kobayashi: "Physiology of so-gel transportation network in Physarum"KYOTO UNIV. SUURI KAISEKIKEN KOUKYUROKU. 1305. 1-7 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] R. Kobayashi, T. Nakagaki: "Mathematical modeling for movement and morphogenesis in Physarum"KYOTO UNIV. SUURI KAISEKIKEN KOUKYUROKU. 1305. 8-14 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] Yamada, H., Nakagaki, T.: "Oscillation patterns in cytoplasmic networks of the Physarum plasmodium"Proceeding of Traffic and Granular Flow 2001. 92. 47-52 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] 中垣俊之: "粘菌の流路ネットワーク形成と細胞リズム"第17回生体・生理工学シンポジウム論文集. 373-376 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] 中垣俊之: "生物専攻課程に数理生物学を"数学のたのしみ. 30. 43-48 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] 中垣俊之: "To be stationary or oscillatory, that is a question?"日本時間生物学会会誌. 8. 32-37 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] 中垣俊之: "真正粘菌変形体の運動とゾルゲル流路ネットワークの生理"京都大学数理解析研究所講究録. 1305. 1-7 (2003)

    • Related Report
      2002 Annual Research Report
  • [Publications] 中垣俊之: "真正粘菌変形体の運動と形態形成に関する数理モデル"京都大学数理解析研究所講究録. 1305. 8-14 (2003)

    • Related Report
      2002 Annual Research Report
  • [Publications] T.Nakagaki: "Path finding by tube morphogenesis in an amoeboid organism"Biophys.Chem.. 92. 47-52 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] A.Takamatsu: "Spatiotemporal symmetry in rings of coupled biological oscillators of Physarum plasmodial slime mold"Phys.Rev.Lett. 87. 078102-1-078102-4 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] T.Nakagaki: "Smart behavior of true slime mold in labyrinth"Res.in Microbiol.. 152. 767-770 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] 中垣俊之: "迷路を解く単細胞生物"遺伝. 55・3. 23-25 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] 中垣俊之: "迷路を解く巨大アメーバ細胞:粘菌"生物物理. 41. 244-246 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] 中垣俊之: "生物選考課程に数理生理学を"数学の楽しみ. 30(印刷中). (2002)

    • Related Report
      2001 Annual Research Report

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Published: 2001-04-01   Modified: 2016-04-21  

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