Publication

1. Kinosita, Y., M. Sugawa, M. Miyata and T. Nishizaka (2023). "Detection of Steps and Rotation in the Gliding Motility of Mycoplasma mobile." Methods Mol Biol 2646: 327-336.

2. Katoh, T. A., T. Omori, K. Mizuno, X. Sai, K. Minegishi, Y. Ikawa, H. Nishimura, T. Itabashi, E. Kajikawa, S. Hiver, A. H. Iwane, T. Ishikawa, Y. Okada, T. Nishizaka and H. Hamada (2023). "Immotile cilia mechanically sense the direction of fluid flow for left-right determination." Science 379(6627): 66-71.

3. Hasimoto, Y., M. Sugawa, Y. Nishiguchi, F. Aeba, A. Tagawa, K. Suga, N. Tanaka, H. Ueno, H. Yamashita, R. Yokota, T. Masaike and T. Nishizaka (2023). "Direct identification of the rotary angle of ATP cleavage in F1-ATPase from Bacillus PS3." Biophys J 122(3): 554-564.

4. Nakane, D., Y. Kabata and T. Nishizaka (2022). "Cell shape controls rheotaxis in small parasitic bacteria." PLoS Pathog 18(7): e1010648.

5. Nakane, D., G. Enomoto, H. Bahre, Y. Hirose, A. Wilde and T. Nishizaka (2022). "Thermosynechococcus switches the direction of phototaxis by a c-di-GMP-dependent process with high spatial resolution." Elife 11.

6. Nakane, D., S. Odaka, K. Suzuki and T. Nishizaka (2021). "Large-Scale Vortices with Dynamic Rotation Emerged from Monolayer Collective Motion of Gliding Flavobacteria." J Bacteriol 203(14): e0007321.

7. Nakane, D., K. Murata, T. Kenri, K. Shibayama and T. Nishizaka (2021). "Molecular ruler of the attachment organelle in Mycoplasma pneumoniae." PLoS Pathog 17(6): e1009621.

8. Ayano, M., Y. Sawamura, T. Hongo-Hirasaki and T. Nishizaka (2021). "Direct visualization of virus removal process in hollow fiber membrane using an optical microscope." Sci Rep 11(1): 1095.

9. Yamagishi, M., S. Fujimura, M. Sugawa, T. Nishizaka and J. Yajima (2020). "N-terminal beta-strand of single-headed kinesin-1 can modulate the off-axis force-generation and resultant rotation pitch." Cytoskeleton (Hoboken) 77(9): 351-361.

10. Nakane, D., T. Ito and T. Nishizaka (2020). "Coexistence of Two Chiral Helices Produces Kink Translation in Spiroplasma Swimming." J Bacteriol 202(8).

11. Kvansakul, M. and T. Nishizaka (2020). "Session 1SBP: ASB-BSJ Joint Symposium-current challenges in biophysics centering on biomolecular interactions and the underlying forces." Biophys Rev 12(2): 255-256.

12. Cohen, E. J., D. Nakane, Y. Kabata, D. R. Hendrixson, T. Nishizaka and M. Beeby (2020). "Campylobacter jejuni motility integrates specialized cell shape, flagellar filament, and motor, to coordinate action of its opposed flagella." PLoS Pathog 16(7): e1008620.

13. Sani, M. A. and T. Nishizaka (2019). "Structural Biology, ASB/ABA meeting, Melbourne." Biophys Rev 11(3): 275-276.

14. Nishizaka, T., T. Masaike and D. Nakane (2019). "Insights into the mechanism of ATP-driven rotary motors from direct torque measurement." Biophys Rev 11(4): 653-657.

15. Naito, T. M., T. Masaike, D. Nakane, M. Sugawa, K. A. Okada and T. Nishizaka (2019). "Single-molecule pull-out manipulation of the shaft of the rotary motor F1-ATPase." Sci Rep 9(1): 7451.

16. Kimura, T., T. Tezuka, D. Nakane, T. Nishizaka, S. I. Aizawa and Y. Ohnishi (2019). "Characterization of Zoospore Type IV Pili in Actinoplanes missouriensis." J Bacteriol 201(14).

17. Iwata, S., Y. Kinosita, N. Uchida, D. Nakane and T. Nishizaka (2019). "Motor torque measurement of Halobacterium salinarum archaellar suggests a general model for ATP-driven rotary motors." Commun Biol 2: 199.

18. Sugawa, M., T. Masaike, N. Mikami, S. Yamaguchi, K. Shibata, K. Saito, F. Fujii, Y. Y. Toyoshima, T. Nishizaka and J. Yajima (2018). "Circular orientation fluorescence emitter imaging (COFEI) of rotational motion of motor proteins." Biochem Biophys Res Commun 504(4): 709-714.

19. Mizutani, M., I. Tulum, Y. Kinosita, T. Nishizaka and M. Miyata (2018). "Detailed Analyses of Stall Force Generation in Mycoplasma mobile Gliding." Biophys J 114(6): 1411-1419.

20. Kinosita, Y. and T. Nishizaka (2018). "Cross-kymography analysis to simultaneously quantify the function and morphology of the archaellum." Biophys Physicobiol 15: 121-128.

21. Kinosita, Y., M. Miyata and T. Nishizaka (2018). "Publisher Correction: Linear motor driven-rotary motion of a membrane-permeabilized ghost in Mycoplasma mobile." Sci Rep 8(1): 12820.

22. Kinosita, Y., Y. Kikuchi, N. Mikami, D. Nakane and T. Nishizaka (2018). "Unforeseen swimming and gliding mode of an insect gut symbiont, Burkholderia sp. RPE64, with wrapping of the flagella around its cell body." ISME J 12(3): 838-848.

23. Katoh, T. A., K. Ikegami, N. Uchida, T. Iwase, D. Nakane, T. Masaike, M. Setou and T. Nishizaka (2018). "Three-dimensional tracking of microbeads attached to the tip of single isolated tracheal cilia beating under external load." Sci Rep 8(1): 15562.

24. Nakane, D. and T. Nishizaka (2017). "Asymmetric distribution of type IV pili triggered by directional light in unicellular cyanobacteria." Proc Natl Acad Sci USA 114(25): 6593-6598.

25. Katoh, T. A., S. Fujimura and T. Nishizaka (2017). 3-D Single Particle Tracking Using Dual Images Divided by Prism: Method and Application to Optical Trapping. Handbook of Photonics for Biomedical Engineering. A. H.-P. Ho, D. Kim and M. G. Somekh, Springer: 755-766.

26. Fujimura, S., Y. Ito, M. Ikeguchi, K. Adachi, J. Yajima and T. Nishizaka (2017). "Dissection of the angle of single fluorophore attached to the nucleotide in corkscrewing microtubules." Biochem Biophys Res Commun 485(3): 614-620.

27. Tanaka, A., D. Nakane, M. Mizutani, T. Nishizaka and M. Miyata (2016). "Directed Binding of Gliding Bacterium, Mycoplasma mobile, Shown by Detachment Force and Bond Lifetime." MBio 7(3).

28. Sugawa, M., K. Okazaki, M. Kobayashi, T. Matsui, G. Hummer, T. Masaike and T. Nishizaka (2016). "F1-ATPase conformational cycle from simultaneous single-molecule FRET and rotation measurements." Proc Natl Acad Sci USA 113(21): E2916-2924.

29. Kinosita, Y., N. Uchida, D. Nakane and T. Nishizaka (2016). "Direct observation of rotation and steps of the archaellum in the swimming halophilic archaeon Halobacterium salinarum." Nat Microbiol 1(11): 16148.

30. Yamaguchi, S., K. Saito, M. Sutoh, T. Nishizaka, Y. Y. Toyoshima and J. Yajima (2015). "Torque generation by axonemal outer-arm dynein." Biophys J 108(4): 872-879.

31. Lee, W., Y. Kinosita, Y. Oh, N. Mikami, H. Yang, M. Miyata, T. Nishizaka and D. Kim (2015). "Three-Dimensional Superlocalization Imaging of Gliding Mycoplasma mobile by Extraordinary Light Transmission through Arrayed Nanoholes." ACS Nano 9(11): 10896-10908.

32. Kurushima, J., D. Nakane, T. Nishizaka and H. Tomita (2015). "Bacteriocin protein BacL1 of Enterococcus faecalis targets cell division loci and specifically recognizes L-Ala2-cross-bridged peptidoglycan." J Bacteriol 197(2): 286-295.

33. Kinosita, Y., D. Nakane, M. Sugawa, T. Masaike, K. Mizutani, M. Miyata and T. Nishizaka (2014). "Unitary step of gliding machinery in Mycoplasma mobile." Proc Natl Acad Sci USA 111(23): 8601-8606.

34. Yogo, K., T. Ogawa, M. Hayashi, Y. Harada, T. Nishizaka and K. Kinosita, Jr. (2012). "Direct observation of strand passage by DNA-topoisomerase and its limited processivity." PLoS One 7(4): e34920.

35. Sato, C., S. Manaka, D. Nakane, H. Nishiyama, M. Suga, T. Nishizaka, M. Miyata and Y. Maruyama (2012). "Rapid imaging of mycoplasma in solution using Atmospheric Scanning Electron Microscopy (ASEM)." Biochem Biophys Res Commun 417(4): 1213-1218.

36. Kim, K., J. Yajima, Y. Oh, W. Lee, S. Oowada, T. Nishizaka and D. Kim (2012). "Nanoscale localization sampling based on nanoantenna arrays for super-resolution imaging of fluorescent monomers on sliding microtubules." Small 8(6): 892-900, 786.

37. Adachi, K., K. Oiwa, M. Yoshida, T. Nishizaka and K. Kinosita, Jr. (2012). "Controlled rotation of the F1-ATPase reveals differential and continuous binding changes for ATP synthesis." Nat Commun 3: 1022.

38. Tsuji, T., S. Kawai-Noma, C. G. Pack, H. Terajima, J. Yajima, T. Nishizaka, M. Kinjo and H. Taguchi (2011). "Single-particle tracking of quantum dot-conjugated prion proteins inside yeast cells." Biochem Biophys Res Commun 405(4): 638-643.

39. Tsuji, T., S. Kawai-Noma, C. G. Pack, H. Terajima, J. Yajima, T. Nishizaka, M. Kinjo and H. Taguchi (2011). "Single-particle tracking of quantum dot-conjugated prion proteins inside yeast cells." Biochem Biophys Res Commun 405(4): 638-643.

40. Sugawa, M., K. A. Okada, T. Masaike and T. Nishizaka (2011). "A change in the radius of rotation of F1-ATPase indicates a tilting motion of the central shaft." Biophys J 101(9): 2201-2206.

41. Nishizaka, T., Y. Hasimoto and T. Masaike (2011). "Simultaneous observation of chemomechanical coupling of a molecular motor." Methods Mol Biol 778: 259-271.

42. Nishizaka, T. (2010). "Molecular bio-motors in living cells." Adv Biochem Eng Biotechnol 119: 3-15.

43. Tabata, K. V., K. Sato, T. Ide, T. Nishizaka, A. Nakano and H. Noji (2009). "Visualization of cargo concentration by COPII minimal machinery in a planar lipid membrane." EMBO J 28(21): 3279-3289.

44. Masaike, T. and T. Nishizaka (2009). "[Visualisation of conformational changes of proteins at the single-molecule level]." Tanpakushitsu Kakusan Koso 54(15): 1919-1927.

45. Yajima, J., K. Mizutani and T. Nishizaka (2008). "A torque component present in mitotic kinesin Eg5 revealed by three-dimensional tracking." Nat Struct Mol Biol 15(10): 1119-1121.

46. Masaike, T., F. Koyama-Horibe, K. Oiwa, M. Yoshida and T. Nishizaka (2008). "Cooperative three-step motions in catalytic subunits of F1-ATPase correlate with 80 degrees and 40 degrees substep rotations." Nat Struct Mol Biol 15(12): 1326-1333.

47. Nishizaka, T. and T. Masaike (2007). "[Advanced method for single molecule imaging: application to rotary molecular motor]." Tanpakushitsu Kakusan Koso 52(4): 317-322.

48. Muneyuki, E., T. Watanabe-Nakayama, T. Suzuki, M. Yoshida, T. Nishizaka and H. Noji (2007). "Single molecule energetics of F1-ATPase motor." Biophys J 92(5): 1806-1812.

49. Adachi, K., K. Oiwa, T. Nishizaka, S. Furuike, H. Noji, H. Itoh, M. Yoshida and K. Kinosita, Jr. (2007). "Coupling of rotation and catalysis in F1-ATPase revealed by single-molecule imaging and manipulation." Cell 130(2): 309-321.

50. Nishizaka, T., K. Oiwa, H. Noji, S. Kimura, E. Muneyuki, M. Yoshida and K. Kinosita, Jr. (2004). "Chemomechanical coupling in F1-ATPase revealed by simultaneous observation of nucleotide kinetics and rotation." Nat Struct Mol Biol 11(2): 142-148.

51. Nishizaka, T., Q. Shi and M. P. Sheetz (2000). "Position-dependent linkages of fibronectin- integrin-cytoskeleton." Proc Natl Acad Sci USA 97(2): 692-697.

52. Nishizaka, T., R. Seo, H. Tadakuma, K. Kinosita, Jr. and S. Ishiwata (2000). "Characterization of single actomyosin rigor bonds: load dependence of lifetime and mechanical properties." Biophys J 79(2): 962-974.

53. Kato, H., T. Nishizaka, T. Iga, K. Kinosita, Jr. and S. Ishiwata (1999). "Imaging of thermal activation of actomyosin motors." Proc Natl Acad Sci USA 96(17): 9602-9606.

54. Nishizaka, T., H. Miyata, H. Yoshikawa, S. Ishiwata and K. Kinosita, Jr. (1995). "Mechanical properties of single protein motor of muscle studied by optical tweezers." Biophys J 68(4 Suppl): 75S.

55. Nishizaka, T., H. Miyata, H. Yoshikawa, S. Ishiwata and K. Kinosita, Jr. (1995). "Unbinding force of a single motor molecule of muscle measured using optical tweezers." Nature 377(6546): 251-254.

56. Miyata, H., H. Yoshikawa, R. Yasuda, H. Hakozaki, T. Nishizaka, K. Kinosita, Jr. and S. Ishiwata (1995). "Stepwise force-displacement measurement of acto-myosin motor at extremely low ATP concentrations." J. Muscle Res. Cell Motil. (abstr.) 16: 338.

57. Miyata, H., H. Yoshikawa, H. Hakozaki, N. Suzuki, T. Furuno, A. Ikegami, K. Kinosita, Jr., T. Nishizaka and S. Ishiwata (1995). "Mechanical measurements of single actomyosin motor force." Biophys J 68(4 Suppl): 286S-289S; discussion 289S-290S.

58. Kato, H., T. Nishizaka, M. Kawase, K. Someya, S. Ishiwata and K. Kinosita Jr. (1995). "Imaging of mechanochemical coupling of muscle contractile pH-sensitive fluorescent dye." J. Muscle Res. Cell Motil. (abstr.) 16: 337-338.

59. Nishizaka, T., H. Miyata, H. Yoshikawa, S. Ishiwata and K. Kinosita, Jr. (1994). Microscopic measurement of the sliding and binding force between muscle proteins with optical tweezers. Optical methods in biomedical and environmental sciences. H. Ohzu and S. Komatsu. Amsterdam, Elsevier Science B. V.: 195-198.

60. Miyata, H., H. Hakozaki, H. Yoshikawa, N. Suzuki, K. Kinosita, Jr., T. Nishizaka and S. Ishiwata (1994). "Stepwise motion of an actin filament over a small number of heavy meromyosin molecules is revealed in an in vitro motility assay." J Biochem 115(4): 644-647.

61. Nishizaka, T., T. Yagi, Y. Tanaka and S. Ishiwata (1993). "Right-handed rotation of an actin filament in an in vitro motile system." Nature 361(6409): 269-271.

62. Nishizaka, T., N. Suzuki, H. Hakozaki, H. Miyata, S. Ishiwata and K. Kinosita, Jr. (1993). "Measurement of sliding force generated on an actin filament under various concentration of HMM in an in vitro motile system." J. Muscle Res. Cell Motil. (abstr.) 14: 357-358.

63. Kinosita, K., Jr., N. Suzuki, S. Ishiwata, T. Nishizaka, H. Itoh, H. Hakozaki, G. Marriott and H. Miyata (1993). "Orientation of actin monomers in moving actin filaments." Adv Exp Med Biol 332: 321-328; discussion 329.

64. Kinosita, K., Jr., H. Itoh, S. Ishiwata, K. Hirano, T. Nishizaka and T. Hayakawa (1991). "Dual-view microscopy with a single camera: real-time imaging of molecular orientations and calcium." J Cell Biol 115(1): 67-73.

Takayuki Nishizaka, Ph. D.

Professor, Dept. Phys., Gakushuin University

Administration Officer for International Affairs in Biophysical Society of Japan

Executive Committee in Asian Biophysics Association

Councilor in IUPAB (International Union for Pure and Applied Biophysics)

1-5-1 Mejiro, Toshima-ku, Tokyo 171-8588, Japan

takayuki.nishizaka@gakushuin.ac.jp

TEL: +81-3-5904-9371, FAX: +81-3-5992-1029