Stretching and transporting DNA molecules using motor proteins

Nano Letters

Volumn 3, Issue 9, 2003, Pages 1251-1254

  Diez, Stefan ^a   Reuther, Cordula ^a   Dinu, Cerasela ^a   Seidel, Ralf ^b   Mertig, Michael ^b   Pompe, Wolfgang ^b   Howard, Jonathon ^a  

^a MAX PLANCK INSTITUTE OF MOLECULAR CELL BIOLOGY AND GENETICS   (Germany)

^b DRESDEN UNIVERSITY OF TECHNOLOGY   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIOPHAGE DNA; KINESIN;

ARTICLE; ENVIRONMENTAL FACTOR; MICROTUBULE; MOLECULE; PROTEIN FUNCTION;

EID: 0141461366     PISSN: 15306984     EISSN: None     Source Type: Journal    
DOI: 10.1021/nl034504h     Document Type: Article

References (47)

1. Seeman, N. C. Trends Biotechnol. 1999, 17, 437-443.
2. Storm, A. J.; van Noort, J.; de Vries, S.; Dekker, C. Appl. Phys. Lett. 2001, 79, 3881-3883.
3. Braun, E.; Eichen, Y.; Sivan, U.; Ben-Yoseph, G. Nature 1998, 391, 775-778.
4. Keren, K.; Krueger, M.; Gilad, R.; Ben-Yoseph, G.; Sivan, U.; Braun, E. Science 2002, 297, 72-75.
5. Mertig, M.; Ciacchi, L. C.; Seidel, R.; Pompe, W.; De Vita, A. Nano Lett. 2002, 2, 841-844.
6. Aich, P.; Labiuk, S. L.; Tari, L. W.; Delbaere, L. J.; Roesler, W. J.; Falk, K. J.; Steer, R. P.; Lee, J. S. J. Mol. Biol. 1999, 294, 477-485.
7. Alivisatos, A. P.; Johnsson, K. P.; Peng, X. G.; Wilson, T. E.; Loweth, C. J.; Bruchez, M. P.; Schultz, P. G. Nature 1996, 382, 609-611.
8. Storhoff, J. J.; Mirkin, C. A. Chem. Rev. 1999, 99, 1849-1862.
9. Richter, J.; Mertig, M.; Pompe, W.; Monch, I.; Schackert, H. K. Appl. Phys. Lett. 2001, 78, 536-538.
10. Richter, J.; Mertig, M.; Pompe, W.; Vinzelberg, H. Appl. Phys. A 2002, 74, 725-728.
11. Bustamante, C.; Smith, S. B.; Liphardt, J.; Smith, D. Curr. Opin. Struct. Biol. 2000, 10, 279-285.
12. Smith, S. B.; Finzi, L.; Bustamante, C. Science 1992, 258, 1122-1126.
13. Gosse, C.; Croquette, V. Biophys. J. 2002, 82, 3314-3329.
14. Smith, S. B.; Cui, Y.; Bustamante, C. Science 1996, 271, 795-799.
15. Arai, Y.; Yasuda, R.; Akashi, K.; Harada, Y.; Miyata, H.; Kinosita, K., Jr.; Itoh, H. Nature 1999, 399, 446-448.
16. Wenner, J. R.; Williams, M. C.; Rouzina, I.; Bloomfield, V. A. Biophys. J. 2002, 82, 3160-3169.
17. Cluzel, P.; Lebrun, A.; Heller, C.; Lavery, R.; Viovy, J. L.; Chatenay, D.; Caron, F. Science 1996, 271, 792-794.
18. Essevaz-Roulet, B.; Bockelmann, U.; Heslot, F. Proc. Natl. Acad. Sci. U.S.A. 1997, 94, 11935-11940.
19. Rief, M.; Clausen-Schaumann, H.; Gaub, H. E. Nat. Struct. Biol. 1999, 6, 346-349.
20. Perkins, T. T.; Quake, S. R.; Smith, D. E.; Chu, S. Science 1994, 264, 822-826.
21. Mertig, M.; Seidel, R.; Colombi Ciacchi, L.; Pompe, W. AIP Conf. Proc. 2002, 633, 449-453.
22. Zimmermann, R. M.; Cox, E. C. Nucleic Acids Res. 1994, 22, 492-497.
23. Namasivayam, V.; Larson, R. G.; Burke, D. T.; Burns, M. A. Anal. Chem. 2002, 74, 3378-3385.
24. Bensimon, D.; Simon, A. J.; Croquette, V. V.; Bensimon, A. Phys. Rev. Lett. 1995, 74, 4754-4757.
25. Gueroui, Z.; Place, C.; Freyssingeas, E.; Berge, B. Proc. Natl. Acad. Sci. U.S.A. 2002, 99, 6005-6010.
26. Hu, J.; Zhang, Y.; Gao, H.; Li, M.; Hartmann, U. Nano Lett. 2002, 2, 55-57.
27. Howard, J. Mechanics of Motor Proteins and the Cytoskeleton; Sinauer Associates: Sunderland, MA, 2001.
28. Montemagno, C.; Bachand, G. Nanotechnology 1999, 10, 225-231.
29. Suzuki, H.; Yamada, A.; Oiwa, K.; Nakayama, H.; Mashiko, S. Biophys. J. 1997, 72, 1997-2001.
30. Nicolau, D. V.; Suzuki, H.; Mashiko, S.; Taguchi, T.; Yoshikawa, S. Biophys. J. 1999, 77, 1126-1134.
31. Hess, H.; Clemmens, J.; Qin, D.; Howard, J.; Vogel, V. Nano Lett. 2001, 1, 235-239.
32. Hess, H.; Vogel, V. J. Biotechnol. 2001, 82, 67-85.
33. Hess, H.; Clemmens, J.; Howard, J.; Vogel, V. Nano Lett. 2002, 2, 113-116.
34. Hess, H.; Howard, J.; Vogel, V. Nano Lett. 2002, 2, 1113-1115.
35. Bohm, K. J.; Stracke, R.; Muhlig, P.; Unger, E. Nanotechnology 2001, 12, 238-244.
36. Diez, S.; Helenius, J.; Howard, J. In Nano-Biotechnology; Niemeyer, C., Mirkin, C. A., Eds.; Wiley-VCH: in press, 2003.
37. Svoboda, K.; Schmidt, C. F.; Schnapp, B. J.; Block, S. M. Nature 1993, 365, 721-727.
38. Coy, D. L.; Wagenbach, M.; Howard, J. J. Biol. Chem. 1999, 274, 3667-3671.
39. 2) containing 10 μM taxol, yielding a microtubule solution with about 0.64 μM polymerized tubulin (also termed B-MT 50). The ends of λ-phage DNA were biotinylated using the Kleenow fragment of polymerase I and biotinylated dCTP (13), thus yielding fully double-stranded DNA with four biotin molecules on one end and six biotin molecules on the other. For fluorescent labeling, 5 μL of biotinylated λ-DNA (100 μg/mL) was mixed with 44 μL of Nanopure water and 1 μL of YOYO-1 iodide stock solution (25 x diluted in TBE buffer (45 mM Tris-borate, 1 mM EDTA)). The solution was incubated for at least 30 min at 4°C in the dark. Streptavidin was bound to the biotinylated tubulin sites on the microtubule lattice by mixing B-MT 50 with streptavidin (40 nM in BRB10). To achieve rapid binding and thus to avoid any cross linking of microtubules, the mixing was performed while vortexing the solution. The labeled λ-DNA (diluted to 2 μg/mL in BRB 10 containing 10 μM taxol) was then added to the microtubule- streptavidin solution.
40. For objective-type TIRF, the 488-nm line from an argon/krypton ion laser (Innova 90, Coherent, U.K.) was coupled into an optical single mode, polarization-maintaining fiber (OZ optics, Canada) and injected off-center into the epi-illumination port of a Zeiss Axiovert 200M optical microscope. Rhodamine-labeled microtubules were imaged by conventional epifluorescence microscopy. Sets of rhodamine (red) and YOYO (green) fluorescence images were acquired every 5 s with an exposure time of 100 ms using an intensified cooled CCD camera (I-PentaMax, Princeton Instruments, Trenton, NJ) and the Metamorph imaging system (Universal Imaging Corp., Downingtown, PA). To obtain dual color images, fast switching between TIRF and epi-illumination was realized using an optical shutter system (Ludl Electronic Products, Hawthorne, NY) and the motorized filter turret of the Zeiss Axiovert 200M microscope. Red and green images were obtained sequentially with a lag time of about 0.9 s.
41. Allemand, J. F.; Bensimon, D.; Jullien, L.; Bensimon, A.; Croquette, V. Biophys. J. 1997, 73, 2064-2070.
42. Akerman, B.; Tuite, E. Nucleic Acids Res. 1996, 24, 1080-1090.
43. Howard, J.; Hudspeth, A. J.; Vale, R. D. Nature 1989, 342, 154-158.
44. Hancock, W. O.; Howard, J. J. Cell Biol. 1998, 140, 1395-1405.
45. Hiratsuka, Y.; Tada, T.; Oiwa, K.; Kanayama, T.; Uyeda, T. Q. P. Biophys. J. 2001, 81, 1555-1561.
46. Moorjani, S. G.; Jia, L.; Jackson, T. N.; Hancock, W. O. Nano Lett. 2003, 3, 633-637.
47. Williams, K. A.; Veenhuizen, P. T.; de la Torre, B. G.; Eritja, R.; Dekker: C. Nature 2002, 420, 761.