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2016 Fiscal Year Research-status Report

Compression stress induced deformation of microtubule on an elastic medium

Research Project

Project/Area Number 16K16383
Research InstitutionHokkaido University

Principal Investigator

コビル アリフ  北海道大学, 理学研究院, 特任助教 (10724867)

Project Period (FY) 2016-04-01 – 2018-03-31
KeywordsMicrotubule / Mechanical deformation / Buckling / Compression stress / Elastic medium
Outline of Annual Research Achievements

In the last year, in order to demonstrate compression stress induced mechanical deformation of microtubules in vitro, we have developed a computer controlled mechanical chamber system.The main component of the chamber system is a mechanical chamber equipped with DC motors, controller, and other electronic accessories. Using the mechanical chamber system, we have performed preliminary investigations on the response of microtubules to compression stress. We demonstrated compression test of microtubules in vitro by placing the microtubules on a soft elastomeric material PDMS. Kinesin was used an an anchor to fix the microtubules to the PDMS. The PDMS served here as an elastic medium similar to the environment of microtubules in cell, where cytoplasm serves as an elastic medium.
Upon application of compression stress to the microtubules using the mechanical chamber buckling of microtubules, akin to that observed in cell has been reproduced in laboratory. Role of interaction of microtubules with surrounding elastic medium has also been investigated with the help of computer simulation, and compared with the experimental results. From our investigations, it has been revealed that extent of interaction of microtubules with the surrounding elastic medium strongly influences the buckling mode and extent of buckling of microtubules. In addition, strain has a significant role, but strain rate has no influence on the buckling of microtubules.

Current Status of Research Progress
Current Status of Research Progress

2: Research has progressed on the whole more than it was originally planned.

Reason

So far progress of the project has been satisfactory in the last year. According to our proposed plan, we have developed a computer controlled mechanical chamber system. Performance of the chamber system has been authenticated by demonstrating compression stress induced mechanical deformation of microtubules in vitro. The deformation closely mimicked the deformation mode of microtubules in cell. Therefore, the challenges for the first year were successfully overcome and the targets have been mostly achieved.

Strategy for Future Research Activity

In the next year, detail investigation on the compression stress induced mechanical deformation of microtubules will be carried out. Effect of an elastic medium around microtubules and interaction mode of microtubules with the medium on the deformation of microtubules will be vividly investigated. In addition, role of microtubule associated protein kinesin, strain, etc. in the deformation of microtubules will be thoroughly investigated and compared with the deformation of microtubules in cells.

Causes of Carryover

In the last year the project has been partially implemented. In the current year the aim is to complete the project as was proposed. So a considerable amount of work has to be done in this year, for which it would be required to purchase many materials.

Expenditure Plan for Carryover Budget

The mechanical chamber system has already been developed in the last year. So in the current year mainly it might be required to purchase various chemicals and reagents for performing experiments. So the plan is to consume the budget for mainly purchase of the required chemicals and reagent materials.

  • Research Products

    (21 results)

All 2017 2016

All Journal Article (2 results) (of which Int'l Joint Research: 2 results,  Peer Reviewed: 2 results,  Acknowledgement Compliant: 1 results,  Open Access: 1 results) Presentation (19 results) (of which Int'l Joint Research: 5 results,  Invited: 2 results)

  • [Journal Article] Buckling of microtubules on elastic media via breakable bonds2016

    • Author(s)
      Tanjina Afrin, Arif Md. Rashedul Kabir, Kazuki Sada, Akira Kakugo, Takahiro Nitta
    • Journal Title

      Biochemical and Biophysical Research Communications (BBRC)

      Volume: 480 Pages: 132-138

    • DOI

      10.1016/j.bbrc.2016.09.133

    • Peer Reviewed / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Sensing surface mechanical deformation using active probes driven by motor proteins2016

    • Author(s)
      Daisuke Inoue, Takahiro Nitta, Arif Md. Rashedul Kabir, Kazuki Sada, Jian Ping Gong, Akihiko Konagaya, Akira Kakugo
    • Journal Title

      Nature Communications

      Volume: 7 (12557) Pages: 1-10

    • DOI

      10.1038/ncomms12557

    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Presentation] Biomolecular motor powered molecular robots2017

    • Author(s)
      Arif Md. Rashedul Kabir, Akira Kakugo
    • Organizer
      Workshop on molecular robotics
    • Place of Presentation
      Koshiba Hall, Hongo Campus, University of Tokyo, Bunkyo-ku, Tokyo
    • Year and Date
      2017-03-11
  • [Presentation] Behavior of microtubule collective motion induced by depletion force2017

    • Author(s)
      Ai Saito, Ryuhei Suzuki, Tamanna Ishrat Farhana, Arif Md. Rashedul Kabir, Kazuki Sada, Akira Kakugo
    • Organizer
      Winter meeting, Hokkaido Branch, SPSJ
    • Place of Presentation
      Hokkaido University, Sapporo, Hokkaido
    • Year and Date
      2017-01-19
  • [Presentation] Buckling of Microtubules on an Elastic Medium2016

    • Author(s)
      Arif Md. Rashedul Kabir, Tanjina Afrin, Kazuki Sada, Akira Kakugo
    • Organizer
      The 17th RIES-HOKUDAI INTERNATIONAL SYMPOSIUM
    • Place of Presentation
      Chateraise Gateaux Kingdom, Sapporo, Hokkaido
    • Year and Date
      2016-12-13 – 2016-12-14
    • Int'l Joint Research
  • [Presentation] Dynamic Behavior of Swarm Microtubules Driven by Kinesins2016

    • Author(s)
      Arif Md. Rashedul Kabir
    • Organizer
      The 6th Soft Matter Symposium
    • Place of Presentation
      Hokkaido University, Sapporo, Hokkaido
    • Year and Date
      2016-10-24 – 2016-10-26
    • Invited
  • [Presentation] Mechanical Deformation Induced Modulation of Biochemical Functions of Microtubules2016

    • Author(s)
      Tanjina Afrin, Arif Md. Rashedul Kabir, Kazuki Sada, Akira Kakugo
    • Organizer
      The 6th Soft Matter Symposium
    • Place of Presentation
      Hokkaido University, Sapporo, Hokkaido
    • Year and Date
      2016-10-24 – 2016-10-26
  • [Presentation] Collective Motion of Microtubules with Different Lengths and Rigidity2016

    • Author(s)
      Tamanna Ishrat Farhana, Arif Md. Rashedul Kabir, Daisuke Inoue, Kazuki Sada, Akira Kakugo
    • Organizer
      The 6th Soft Matter Symposium
    • Place of Presentation
      Hokkaido University, Sapporo, Hokkaido
    • Year and Date
      2016-10-24 – 2016-10-26
  • [Presentation] Response behavior of microtubules to external mechanical stimuli2016

    • Author(s)
      Seiji Nishikawa, Tanjina Afrin, Arif Md. Rashedul Kabir, Kazuki Sada, Akira Kakugo
    • Organizer
      The 6th Soft Matter Symposium
    • Place of Presentation
      Hokkaido University, Sapporo, Hokkaido
    • Year and Date
      2016-10-24 – 2016-10-26
  • [Presentation] Controlling the direction of microtubule assembly using photoresponsive DNA2016

    • Author(s)
      Ryuhei Suzuki, Daisuke Inoue, Arif Md. Rashedul Kabir, Kazuki Sada, Akinori Kuzuya, Hiroyuki Asanuma, Akira Kakugo
    • Organizer
      The 6th Soft Matter Symposium
    • Place of Presentation
      Hokkaido University, Sapporo, Hokkaido
    • Year and Date
      2016-10-24 – 2016-10-26
  • [Presentation] DNA assisted control of swarming of a biomolecular motor system2016

    • Author(s)
      Jakia Jannat Keya, Arif Md. Rashedul Kabir, Daisuke Inoue, Kazuki Sada, Akinori Kuzuya, Akira Kakugo
    • Organizer
      The 6th Soft Matter Symposium
    • Place of Presentation
      Hokkaido University, Sapporo, Hokkaido
    • Year and Date
      2016-10-24 – 2016-10-26
  • [Presentation] Reproduction and motility control of cilia structure in vitro2016

    • Author(s)
      Ren Sasaki, Shoki Wada, Daisuke Inoue, Arif Md. Rashedul Kabir, Kazuki Sada, Akira Kakugo
    • Organizer
      The 6th Soft Matter Symposium
    • Place of Presentation
      Hokkaido University, Sapporo, Hokkaido
    • Year and Date
      2016-10-24 – 2016-10-26
  • [Presentation] Mechanical Oscillation of Dynamic Microtubule Rings2016

    • Author(s)
      Masaki Ito, Arif Md. Rashedul Kabir, Md. Sirajul Islam, Daisuke Inoue, Shoki Wada, Kazuki Sada, Akihiko Konagaya, Akira Kakugo
    • Organizer
      The 6th Soft Matter Symposium
    • Place of Presentation
      Hokkaido University, Sapporo, Hokkaido
    • Year and Date
      2016-10-24 – 2016-10-26
  • [Presentation] Regulatory Effects of ROS on the Dynamic Instability of Microtubules2016

    • Author(s)
      Md. Sirajul Islam, Arif Md. Rashedul Kabir, Daisuke Inoue, Kazuki Sada, Akira Kakugo
    • Organizer
      The 6th Soft Matter Symposium
    • Place of Presentation
      Hokkaido University, Sapporo, Hokkaido
    • Year and Date
      2016-10-24 – 2016-10-26
  • [Presentation] Effect of microtubule concentration and depletion force on the emergence of collective motion of microtubules2016

    • Author(s)
      Ai Saito, Ryuhei Suzuki, Tamanna Ishrat Farhana, Arif Md. Rashedul Kabir, Kazuki Sada, Akira Kakugo
    • Organizer
      The 6th Soft Matter Symposium
    • Place of Presentation
      Hokkaido University, Sapporo, Hokkaido
    • Year and Date
      2016-10-24 – 2016-10-26
  • [Presentation] Effect of Mechanical Deformation of Microtubules on Motor Protein Based Cargo Transportation2016

    • Author(s)
      Tanjina Afrin, Daisuke Inoue, Arif Md. Rashedul Kabir, Kazuki Sada, Akira Kakugo
    • Organizer
      The 6th Soft Matter Symposium
    • Place of Presentation
      Hokkaido University, Sapporo, Hokkaido
    • Year and Date
      2016-10-24 – 2016-10-26
  • [Presentation] Buckling of microtubules on a 2D elastic medium2016

    • Author(s)
      Arif Md. Rashedul Kabir, Daisuke Inoue, Kazuki Sada, Akira Kakugo
    • Organizer
      The 67th Divisional Meeting on Colloid and Interface Chemistry
    • Place of Presentation
      Hokkaido University of Education, Asahikawa, Hokkaido
    • Year and Date
      2016-09-22 – 2016-09-24
    • Int'l Joint Research
  • [Presentation] Controlling the direction of motion of nanoshuttles through photoregulation of their self-organization2016

    • Author(s)
      Ryuhei Suzuki, Kyohei Uenishi, Jakia Jannat Keya, Arif Md. Rashedul Kabir, Daisuke Inoue, Kazuki Sada, Akinori Kuzuya, Hiroyuki Asanuma, Akira Kakugo
    • Organizer
      The 67th Divisional Meeting on Colloid and Interface Chemistry
    • Place of Presentation
      Hokkaido University of Education, Asahikawa, Hokkaido
    • Year and Date
      2016-09-22 – 2016-09-24
    • Int'l Joint Research
  • [Presentation] Development of a Self-Propelled Motor by Utilizing Oscillatory Beating of Artificial Cilia2016

    • Author(s)
      R. Sasaki, S. Wada, D. Inoue, A. M. R. Kabir, K. Sada, A. Kakugo
    • Organizer
      The 67th Divisional Meeting on Colloid and Interface Chemistry
    • Place of Presentation
      Hokkaido University of Education, Asahikawa, Hokkaido
    • Year and Date
      2016-09-22 – 2016-09-24
    • Int'l Joint Research
  • [Presentation] Mechanical response of microtubules and modulation of its biochemical functionality2016

    • Author(s)
      Akira Kakugo, Tanjina Afrin, Arif Md. Rashedul Kabir, Kazuki Sada
    • Organizer
      65th Annual meeting of The Japan Society for Analytical Chemistry
    • Place of Presentation
      Hokkaido University, Sapporo, Hokkaido
    • Year and Date
      2016-09-15
    • Invited
  • [Presentation] Compression Stress Induced Buckling of Microtubule and It’s Effect on Kinesin-based Cargo Transportation in vitro2016

    • Author(s)
      Akira Kakugo, Arif Md. Rashedul Kabir, Tanjina Afrin, Daisuke Inoue, Kazuki Sada
    • Organizer
      Biophysical Society Thematic Meeting-Engineering Approaches to Biomolecular Motors: From in vitro to in vivo
    • Place of Presentation
      Vancouver, CANADA
    • Year and Date
      2016-06-14 – 2016-06-17
    • Int'l Joint Research

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Published: 2018-01-16  

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