Analysis of Microtubule Curvature

Methods in Cell Biology

Volumn 83, Issue , 2007, Pages 237-268

  Bicek, Andrew D ^a   Tüzel, Erkan ^a,b   Kroll, Daniel M ^c   Odde, David J ^a  

^a University of Minnesota   (United States)

^b UNIVERSITY OF MINNESOTA   (United States)

^c NORTH DAKOTA STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ENHANCED GREEN FLUORESCENT PROTEIN; GREEN FLUORESCENT PROTEIN;

CHEMISTRY; COMPUTER SIMULATION; EPITHELIUM CELL; METHODOLOGY; MICROTUBULE; REPRODUCIBILITY; REVIEW; THREE DIMENSIONAL IMAGING;

COMPUTER SIMULATION; EPITHELIAL CELLS; GREEN FLUORESCENT PROTEINS; IMAGING, THREE-DIMENSIONAL; MICROTUBULES; REPRODUCIBILITY OF RESULTS;

EID: 34347240431     PISSN: 0091679X     EISSN: None     Source Type: Book Series    
DOI: 10.1016/S0091-679X(07)83010-X     Document Type: Review

References (57)

1. Arfken G.B., and Weber H.J. "Mathematical Methods for Physicists." (2001), Academic Press, San Diego
2. Brangwynne C.P., Mackintosh F.C., Kumar S., Geisse N.A., Talbot J., Mahadevan L., Parker K.K., Ingber D.E., and Weitz D.A. Microtubules can bear enhanced compressive loads in living cells because of lateral reinforcement. J. Cell Biol. 173 5 (2006) 733-741
3. Cassimeris L., Gard D., Tran P.T., and Erickson H.P. XMAP215 is a long thin molecule that does not increase microtubule stiffness. J. Cell Sci. 114 (2001) 3025-3033
4. Doi M., and Edwards S.F. "The Theory of Polymer Dynamics." (2004), Oxford University Press, Oxford
5. De Gennes P.G. "Scaling Concepts in Polymer Physics." (1979), Cornell University Press, Ithaca, New York
6. Desai A., and Mitchison T.J. Microtubule polymerization dynamics. Annu. Rev. Cell Dev. Biol. 13 (1997) 83-117
7. Dogterom M., and Yurke B. Measurement of the force-velocity relation for growing microtubules. Science 278 (1997) 856-860
8. Falck E., Lahtinen J.M., Vattulainen I., and Ala-Nissila T. Influence of hydrodynamics on many-particle diffusion in 2D colloidal suspensions. Eur. Phys. J. E 13 (2004) 267-275
9. Falck E., Punkkinen O., Vattulainen I., and Ala-Nissila T. Dynamics and scaling of 2D polymers in a dilute solution. Phys. Rev. E 68 (2003) 050102R
10. Felgner H., Frank R., Biernat J., Mandelkow E.M., Mandelkow E., Ludin B., Matus A., and Schliwa M. Domains of neuronal microtubule-associated proteins and flexural rigidity of microtubules. J. Cell Biol. 138 (1997) 1067-1075
11. Felgner H., Frank R., and Schliwa M. Flexural rigidity of microtubules measured with the use of optical tweezers. J. Cell Sci. 109 (1996) 509-516
12. Frenkel D., and Smit B. "Understanding Molecular Simulation. From Algorithms to Applications." (2002), Academic Press, Boston
13. Fygenson D.K., Elbaum M., Shraiman B., and Libchaber A. Microtubules and vesicles under controlled tension. Phys. Rev. E 55 (1997) 850-859
14. Gildersleeve R.F., Cross A.R., Cullen K.E., Fagen A.P., and Williams Jr. R.C. Microtubules grow and shorten at intrinsically variable rates. J. Biol. Chem. 267 12 (1992) 7995-8006
15. Gittes F., Mickey B., Nettleton J., and Howard J. Flexural rigidity of microtubules and actin filaments measured from thermal fluctuations in shape. J. Cell Biol. 120 4 (1993) 923-934
16. Gupton S.L., Salmon W.C., and Waterman-Storer C.M. Converging populations of F-actin promote breakage of associated microtubules to spatially regulate microtubule turnover in migrating cells. Curr. Biol. 12 (2002) 1891-1899
17. Hecht M., Harting J., Ihle T., and Herrmann H.J. Simulation of claylike colloids. Phys. Rev. E 78 (2005) 011408
18. Heidemann S.R., Kaech S., Buxbaum R.E., and Matus A. Direct observations of the mechanical behavior of the cytoskeleton in living fibroblasts. J. Cell Biol. 145 (1999) 109-122
19. Howard J. "Mechanics of Motor Proteins and the Cytoskeleton." (2001), Sinauer Associates, Sunderland, MA
20. Ihle T., and Kroll D.M. Stochastic rotation dynamics: A Galilean-invariant mesoscopic model for fluid flow. Phys. Rev. E 63 (2001) 020201R
21. Ihle T., and Kroll D.M. Stochastic rotation dynamics. I. Formalism, galilean invariance, and green-kubo relations. Phys. Rev. E 67 (2003) 066705
22. Ihle T., and Kroll D.M. Stochastic rotation dynamics. II. Transport coefficients, numerics, and long-time tails. Phys. Rev. E 67 (2003) 066706
23. Ihle T., Tüzel E., and Kroll D.M. Resummed Green-Kubo relations for a fluctuating fluid-particle model. Phys. Rev. E 70 (2004) 035701R
24. Ihle T., Tüzel E., and Kroll D.M. Equilibrium calculation of transport coefficients for a fluid-particle model. Phys. Rev. E 72 (2005) 046707
25. Janson M.E., De Dood M.E., and Dogterom M. Dynamic instability of microtubules is regulated by force. J. Cell Biol. 161 6 (2003) 1029-1034
26. Janson M.E., and Dogterom M. A bending mode analysis for growing microtubules: Evidence for a velocity-dependent rigidity. Biophys. J. 87 (2004) 2723-2736
27. Kaverina I., Krylyshkina O., Beningo K., Anderson K., Wang Y.L., and Small J.V. Tensile stress stimulates microtubule outgrowth in living cells. J. Cell Sci. 115 11 (2002) 2283-2291
28. Kikuchi N., Gent A., and Yeomans J.M. Polymer collapse in the presence of hydrodynamic interactions. Eur. Phys. J. E 9 (2002) 63-66
29. Kirschner M., and Mitchison T. Beyond self-assembly: From microtubules to morphogenesis. Cell 45 (1986) 329-342
30. Kis A., Kasas S., Babic B., Kulik A.J., Benoit W., Briggs G.A.D., Schonenberger C., Catsicas S., and Forro L. Nanomechanics of microtubules. Phys. Rev. Lett. 89 (2002) 248101
31. Klapper I., and Qian H. Remarks on discrete and continuous large-scale models of DNA dynamics. Biophys. J. 74 (1998) 2504-2514
32. Kurachi M., Hoshi M., and Tashiro H. Buckling of a single microtubule by optical trapping forces-direct measurement of microtubule rigidity. Cell Motil. Cytoskeleton 30 (1995) 221-228
33. Kurz J.C., and Williams R.C. Microtubule-associated proteins and the flexibility of microtubules. Biochemistry 34 (1995) 13374-13380
34. Malevanets A., and Kapral R. Mesoscopic model for solvent dynamics. J. Chem. Phys. 110 (1999) 8605-8613
35. Malevanets A., and Kapral R. Solute molecular dynamics in a mesoscale solvent. J. Chem. Phys. 112 (2000) 7260-7269
36. Malevanets A., and Yeomans J.M. Dynamics of short polymer chains in solution. Europhys. Lett. 52 (2000) 231-236
37. Marenduzzo D., Micheletti C., Seyed-allaei H., Trovoto A., and Maritan A. Continuum model for polymers with finite thickness. J. Phys. A: Math. Gen. 38 (2005) L277-L283
38. Mickey B., and Howard J. Rigidity of microtubules is increased by stabilizing agents. J. Cell Biol. 130 (1995) 909-917
39. Mitchison T., and Kirschner M. Dynamic instability of microtubule growth. Nature 312 (1984) 237-242
40. Noguchi H., and Gompper G. Fluid vesicles with viscous membranes in shear flow. Phys. Rev. Lett. 93 (2004) 258102
41. Odde D.J., Ma L., Briggs A.H., DeMarco A., and Kirschner M.W. Microtubule bending and breaking in living fibroblast cells. J. Cell Sci. 112 (1999) 3283-3288
42. Ott A., Magnasco M., Simon A., and Libchaber A. Measurement of the persistence length of polymerized actin using fluorescence microscopy. Phys. Rev. E 48 3 (1993) R1642-R1645
43. Padding J.T., and Louis A.A. Hydrodynamic and Brownian fluctuations in sedimenting suspensions. Phys. Rev. Lett. 93 (2004) 220601
44. Putnam A.J., Cunningham J.J., Dennis R.G., Linderman J.J., and Mooney D.J. Microtubule assembly is regulated by externally applied strain in cultured smooth muscle cells. J. Cell Sci. 111 (1998) 3379-3387
45. Press W.H., Flannery B.P., Teukolsky S.A., and Vetterling W.T. "Numerical Recipes in C: The Art of Scientific Computing,". 2nd edn. (1992), Cambridge University Press, New York
46. Ripoll M., Mussawisade K., Winkler R.G., and Gompper G. Low-Reynolds-number hydrodynamics of complex fluids by multi-particle-collision dynamics. Europhys. Lett. 68 (2004) 106-112
47. Rusan N.M., Fagerstrom C.J., Yvon A.M., and Wadsworth P. Cell cycle dependent changes in microtubule dynamics in living cells expressing green fluorescent protein-alpha tubulin. Mol. Biol. Cell 12 4 (2001) 971-980
48. Sprague B.L., Pearson C.G., Maddox P.S., Bloom K.S., Salmon E.D., and Odde D.J. Mechanisms of microtubule-based kinetochore positioning in the yeast metaphase spindle. Biophys. J. 84 6 (2003) 3529-3546
49. Storm C., Pastore J.J., MacKintosh F.C., Lubensky T.C., and Janmey P.A. Non-linear elasticity in biofilament gels. Nature 435 (2005) 191-196
50. Takasone T., Juodkazis S., Kawagishi Y., Yamaguchi A., Matsuo S., Sakakibara H., Nakayama H., and Misawa H. Flexural rigidity of a single microtubule. Jpn. J. Appl. Phys. 41 (2002) 3015-3019
51. Tüzel E., Strauss M., Ihle T., and Kroll D.M. Transport coefficients for stochastic rotation dynamics in three dimensions. Phys. Rev. E 68 (2003) 036701
52. Tüzel E., Ihle T., and Kroll D.M. Dynamic correlations in stochastic rotation dynamics. Pre-print, (2006). http://lanl.arxiv.org/cond-mat/0606628
53. Van Noort J., van der Heijden T., de Jager M., Wyman C., Kanaar R., and Dekker C. The coiled-coil of the human Rad50 DNA repair protein contains specific segments of increased flexibility. Proc. Natl. Acad. Sci. USA 100 13 (2003) 7581-7586
54. Venier P., Maggs A.C., Carlier M.-F., and Pantaloni D. Analysis of microtubule rigidity using hydrodynamic flow and thermal fluctuations. J. Biol. Chem. 269 18 (1994) 13353-13360
55. Waterman-Storer C.M., and Salmon E.D. Actomyosin-based retrograde flow of microtubules in the lamella of migrating epithelial cells influences microtubule dynamic instability and turnover and is associated with microtubule breakage and treadmilling. J. Cell Biol. 139 (1997) 417-434
56. Winkler R.G., Mussawisade K., Ripoll M., and Gompper G. Rod-like colloids and polymers in shear flow: A multi-particle-collision dynamics study. J. Phys.: Condens. Matter 16 (2004) 3941-3954
57. Zheng J., Buxbaum R.E., and Heidemann S.R. Investigation of microtubule assembly and organization accompanying tension-induced neurite initiation. J. Cell Sci. 104 4 (1993) 1239-1250