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Stochastic Microtubule Dynamics Revisited

Stochastic Microtubule Dynamics Revisited. Richard Yamada Yoichiro Mori Maya Mincheva (Alex Mogilner and Baochi Nguyen). What are Microtubules?. Protein structures with a diameter of approximately 24 nm, and with a length up to several millimeters in some cells

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Stochastic Microtubule Dynamics Revisited

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  1. Stochastic Microtubule Dynamics Revisited Richard Yamada Yoichiro Mori Maya Mincheva (Alex Mogilner and Baochi Nguyen)

  2. What are Microtubules? • Protein structures with a diameter of approximately 24 nm, and with a length up to several millimeters in some cells • Microtubules consist of polymers of tubulin, 13 protofilaments of which which are formed into a hollow cylinder • Microtubules have plus and minus ends • Highly dynamic - capable of polymerizing and depolymerizing within a time scale of seconds to minutes

  3. What Do Microtubules Look Like?

  4. Why Are Microtubules Important? • Microtubules are involved in many fundamental biological functions/processes, among them: 1) segregating the chromosomes and to orient the plane of cleavage during cell division 2) organize cytoplasm by positioning the organelles 3) serve as the principal structural element of flagella and cilia

  5. Dynamic Instability

  6. Dynamic Instability

  7. Additional Assumptions

  8. Kinetic Equations • a - Polymerization rate • b - Induced transition rate • c - Spontaneous transition rate

  9. Integro-Differential Equations(Continuum Limit) • The ensemble density of microtubules with caps of lengths x at time t is governed by a integro-differential equation:

  10. Numerical Methods 2 ways to simulate Kinetic Equations: • Trapezoidal rule for integration of ODEs (Deterministic) • Gillespie Method (Stochastic) all events (hydrolysis,induced,spontaneous) are possible but are weighted by rate constants along with a random number ( e.g. -log(random)/(rate constant))

  11. Experimental Method - Dilution

  12. Dilution Simulations - Same Cap Lengths

  13. Dilution Simulations - Different Cap Lengths

  14. Dilution Simulations - Initial Growth versus Delay Time

  15. Microtubule Structure

  16. Results of Simulations - 2D Dynamic Instability

  17. Summary • No use of continuum limit equations - instead our approach started from kinetic equations, using 2 numerical methods to investigate dynamic instability • Incorporation of dilution washout effects • Results are consistent with previous published results

  18. Future Directions • Stochastic methods may provide additional statistical measures to validate theory • Compare results to more recent/different experimental data • More realistic 2D cap simulations • Incorporation of our model into a general framework of dynamic instability

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