References on High-speed AFM Application

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2015

1

Nicolas Chiaruttini, Lorena Redondo-Morata, Adai Colom, Frédé ric Humbert, Martin Lenz, Simon Scheuring, Auré lien Roux

Relaxation of Loaded ESCRT-III Spiral Springs Drives Membrane Deformation

Cell 163, 1-14 (2015). (PDF File)@

2 Lars-Anders Carlson, Qing-Tao Shen, Mark Remec Pavlin, and James H. Hurley
ESCRT Filaments as Spiral Springs
Dev. Cell (Previews) 35, 397-398 (2015) (PDF File)
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2014

1

Johannes Preiner, Andreas Horner, Andreas Karner, Nicole Ollinger, Christine Siligan, Peter Pohl, and Peter Hinterdorfer

High-Speed AFM Images of Thermal Motion Provide Stiffness Map of Interfacial Membrane Protein Moieties

Nano Lett. (in press) (PDF File)

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2013

1

Yuki Suzuki, Tom A. Goetze, David Stroebel, Dilshan Balasuriya, Shige H. Yoshimura, Robert M. Henderson, Pierre Paoletti, Kunio Takeyasu, and J. Michael Edwardson

Visualization of Structural Changes Accompanying Activation of N-Methyl-D-aspartate (NMDA) Receptors Using Fast-scan Atomic Force Microscopy Imaging

J. Biol. Chem. 288(2): 778-784 (2013) (PDF File)

2

Luda S. Shlyakhtenko, Alexander Y. Lushnikov, Atsushi Miyagi, Ming Li, Reuben S. Harris, Yuri L. Lyubchenko

Atomic force microscopy studies of APOBEC3G oligomerization and dynamics

J. Struct. Biol. (2013) (in press) http://dx.doi.org/10.1016/j.jsb.2013.09.008

3

Felix Rico, Laura Gonzalez, Ignacio Casuso, Manel Puig-Vidal, Simon Scheuring

High-Speed Force Spectroscopy Unfolds Titin at the Velocity of Molecular Dynamics Simulations

Science 342, 741-743 (2013) (PDF File)

2012

1

Adai Colom, Ignacio Casuso, Thomas Boudier, and Simon Scheuring

High-Speed Atomic Force Microscopy: Cooperative Adhesion and Dynamic Equilibrium of Junctional Microdomain Membrane Proteins

J. Mol. Biol. 423, 249-256 (2012) (PDF File)

2

Ignacio Casuso, Jonathan Khao, Mohamed Chami, Perrine Paul-Gilloteaux, Mohamed Husain, Jean-Pierre Duneau, Henning Stahlberg, James N. Sturgis and Simon Scheuring

Characterization of the motion of membrane proteins using high-speed atomic force microscopy

Nat. nanotechnol. 7: 525-529 (2012) (PDF File)

3

Luda S. Shlyakhtenko, Alexander Y. Lushnikov, Atsushi Miyagi, and Yuri L. Lyubchenko

Specificity of Binding of Single-Stranded DNA-Binding Protein to Its Target

Biochemistry 51, 1500-1509 (2012)

4

Luda S. Shlyakhtenko, Alexander Y. Lushnikov, Atsushi Miyagi, Ming Li, Reuben S. Harris, and Yuri L. Lyubchenko

Nanoscale Structure and Dynamics of ABOBEC3G Complexes with Single-Stranded DNA

Biochemistry 51, 6432-6440 (2012)

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Masumi Iijima, Masaharu Somiya, Nobuo Yoshimoto, Tomoaki Niimi & Shunfichi Kuroda

Nano-visualization of oriented-immobilized IgGs on immunosensors by high-speed atomic force microscopy

Scientific Reports 2: 790 1-5 (2012). (PDF File)

2011

1

Humberto Sanchez, Yuki Suzuki, Masatoshi Yokokawa, Kunio Takeyasu and Claire Wyman

Protein?DNA interactions in high speed AFM: single molecule diffusion analysis of human RAD54

Integrative Biology 3: 1127-1134 (2011) (PDF File)

2

Yuki Suzuki, Jamie L. Gilmore, Shige H. Yoshimura, Robert M. Henderson, Yuri L. Lyubchenko, and Kunio Takeyasu

Visual Analysis of Concerted Cleavage by Type IIF Restriction Enzyme SfiI in Subsecond Time Region

Biophys. J. 101: 2992-2998 (2011). (PDF File)

3

Ignacio Casuso, Felix Rico and Simon Scheuring

High-speed atomic force microscopy: Structure and dynamics of single proteins

Current Opinion in Chemical Biology 15:704-709 (2011) (PDF File)

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Allard J. Katan and Cees Dekker

Leading Edge, Minireview: High-Speed AFM Reveals the Dynamics of Single Biomolecules at the Nanometer Scale

Cell 147, 979-982 (2011). (PDF File)

5

K. Igarashi, T. Uchihashi, A. Koivula, M. Wada, S. Kimura, T. Okamoto, M. Penttilä, T. Ando, and M. Samejima

"Traffic jams reduce hydrolytic efficiency of cellulase on cellulose surface

Science 333:1279-1282 (2011). (PDF File) (Supplementary Info)

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T. Uchihashi, R. Iino, T. Ando, and H. Noji

"High-speed atomic force microscopy reveals rotary catalysis of rotorless F1-ATPase

Science 333, 755-758 (2011). (PDF File) (Supplementary_Info)

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Shelley F. J. Wickham, Masayuki Endo, Yousuke Katsuda, Kumi Hidaka, Jonathan Bath, Hiroshi Sugiyama and Andrew J. Turberfield

Direct observation of stepwise movement of a synthetic molecular transporter

Nature Nanotechnol. 6: 166-169 (2011). (PDF File)

8

Aussie Suzuki, Tetsuya Hori, Tatsuya Nishino, Jiro Usukura, Atsushi Miyagi, Kosuke Morikawa, and Tatsuo Fukagawa

Spindle microtubules generate tension-dependent changes in the distribution of inner kinetochore proteins

J. Cell Biol. Vol. 193 No. 1 125–140 (2011). (PDF File)

9

S. Inoue, T. Uchihashi, D. Yamamoto, and T. Ando,

Direct Observation of Surfactant Aggregate Behavior on a Mica Surface using High-Speed Atomic Force Microscopy

Chem. Commun. 47: 4974–4976 (2011) (PDF File)

10

M. Shibata, T. Uchihashi, H. Yamashita, H. Kandori, and T. Ando

Structural changes in bacteriorhodopsin in response to alternate illumination observed by high-speed atomic force microscopy

Angewande Chemie International edition 50: 4410 –4413 (2011). (PDF File)

11

Masayuki Endo, Kumi Hidaka and Hiroshi Sugiyama

Direct AFM observation of an opening event of a DNA cuboid constructed via a prism structure

Org. Biomol. Chem. 9, 2075 (2011) (PDF File)

12

Atsushi Miyagi, Toshio Ando, and Yuri L. Lyubchenko

Dynamics of Nucleosomes Assessed with Time-Lapse High-Speed Atomic Force Microscopy

Biochemistry 50, 7901-7908 (2011)

13

Masatoshi Yokokawa and Kunio Takeyasu

Motion of the Ca2+-pump captured

FEBS J. 278: 3025-3031 (2011). (PDF File)

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2010

1

Masayuki Endo, Yousuke Katsuda, Kumi Hidaka, and Hiroshi Sugiyama

A Versatile DNA Nanochip for Direct Analysis of DNA Base-Excision Repair

Angew. Chem. Int. Ed. 2010, 49, 9412 -9416 (2010). (PDF File)

2

Masayuki Endo, Yousuke Katsuda, Kumi Hidaka, and Hiroshi Sugiyama

Regulation of DNA Methylation Using Different Tensions of Double Strands Constructed in a Defined DNA Nanostructure

J. AM. CHEM. SOC. 132: 1592-1597 (2010). (PDF File)

3

Yuki Suzuki, Yuji Higuchi, Kohji Hizume, Masatoshi Yokokawa, Shige H.Yoshimura, Kenichi Yoshikawa, Kunio Takeyasu

Molecular dynamics of DNA and nucleosomes in solution studied by fast-scanning atomic force microscopy

Ultramicroscopy 110: 682E688 (2010). (PDF File)

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Masatoshi Yokokawa, Stewart M. Carnally, Robert M. Henderson, Kunio Takeyasu, J. Michael Edwardson

Acid-sensing ion channel (ASIC) 1a undergoes a height transition in response to acidification

FEBS Lett. 584: 3107-3110 (2010). (PDF File)

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Yuta Sannohe, Masayuki Endo, Yousuke Katsuda, Kumi Hidaka, and Hiroshi Sugiyama

Visualization of Dynamic Conformational Switching of the G-Quadruplex in a DNA Nanostructure

J. AM. CHEM. SOC. 132: 16311-16313 (2010). (PDF File)

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Endo, M.;Sugita, T.; Katsuda, Y.; Hidaka, K.; Sugiyam, H.

Programmed-Assembly System Using DNA Jigsaw Pieces.
Chem.Eur.J., 16:5362-5368 (2010). (PDF File)

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Fumiaki Tanaka, Toshio Mochizuki, Xingguo Liang, Hiroyuki Asanuma, Shukichi Tanaka, Katsuyuki Suzuki, Shin-ichi Kitamura, Akio Nishikawa,Kumiko Ui-Tei,and Masami Hagiya

Robust and Photocontrollable DNA Capsules Using Azobenzenes

Nano Lett. 10: 3560-3565 (2010). (PDF File)

8

Toshiro Itani and Julius Joseph Santillan

In situ Characterization of Photoresist Dissolution

Applied Physics Express 3: 061601 (2010). (PDF File)

9

Noriyuki Kodera, Daisuke Yamamoto, Ryoki Ishikawa, and Toshio Ando

Video imaging of walking myosin V by high-speed atomic force microscopy.

Nature 468: 72-76 (2010). (PDF File)

10

Pierre-Emmanuel Milhiet, Daisuke Yamamoto., Olivia Berthoumieu, Patrice Dosset, Christian, Le Grimellec, Jean-Michel Verdier, Stephane Marchal, and Toshio Ando

Deciphering the structure, growth and assembly of amyloid-like fibrils using high-speed atomic force microscopy.

PLos One 5 (11): e13240 (8 pp) (2010). (PDF File)

11

D. Yamamoto, T. Uchihashi, N. Kodera, H. Yamashita, S. Nishikori, T. Ogura, M. Shibata, and T. Ando

High-speed atomic force microscopy techniques for observing dynamic biomolecular processes.

Methods Enzymol. 475 (Part B): 541-564 (2010). (PDF File)

12

Daisuke Yamamoto, Azuma Taoka, Takayuki Uchihashi, Hideaki Sasaki, Hiroki Watanabe, Toshio Ando, and Yoshihiro Fukumori

Visualization and structural analysis of the bacterial magnetic organelle magnetosome using atomic force microscopy

Proc. Natl. Acad. Sci. USA 107: 9382-9387 (2010) (PDF File)

13

S. Sugimoto, K. Yamanaka, S. Nishikori, A. Miyagi, T. Ando, and T. Ogura

AAA+ chaperone ClpX regurates dynamics of prokaryotic cytoskeletal protein FtsZ

J. Biol. Chem. 285: 6648-6657 (2010) (PDF File)

14

M.-C. Giocondi, D. Yamamoto, E. Lesniewska, P.-E. Milhiet, T. Ando, and C. Le Grimellec

Surface topography of membrane domains.

Biochim. Biophys. Acta.-Biomembranes 1798: 703-718 (2010) (PDF File)

15

M. Shibata, H. Yamashita, T. Uchihashi, H. Kandori, and T. Ando

High-speed atomic force microscopy shows dynamic molecular processes in photo-activated bacteriorhodopsin.

Nature Nanotechnology 5, 208 - 212 (2010) (PDF File)

16 Ignacio Casuso, Pierre Sens, Felix Rico, Simon Scheuring
Experimental Evidence for Membrane-Mediated Protein-Protein Interaction  
Biophys. J. 99: L47-L49 (2010). (PDF File) (Supporting Inf)
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K. Shinohara, N. Kodera, T. Oohashi

Single-Molecule Imaging of Photodegradation Reaction in a Chiral Helical p-Conjugated Polymer Chain

J. Polymer Science: Part A: Polymer Chemistry 48(18): 4103-4107 (2010) (PDF File)

18

T. Itani and J. J. Santillan

Dissolution Behavior of Photoresists: An In-situ Analysis

J. Photopoly. Sci. Technol., 23, 639 (2010). (PDF FIle)

19

Y. Shinozaki, K. Sumitomo, K. Furukawa, H. Miyashita, Y. Tamba, N. Kasai, H. Nakashima, and K. Torimitsu

Visualization of Single Membrane Protein Structure in Stretched Lipid Bilayer Suspended over Nanowells

Appl. Phys. Express 3 027002 (2010). (PDF File)

20

Nahoko Kasai, Chandra S. Ramanujan, Ichiro Fujimoto, Akiyoshi Shimada,John F. Ryan, Keiichi Torimitsu

AFM observation of single, functioning ionotropic glutamate receptors reconstituted in lipid bilayers

Biochimica et Biophysica Acta 1800 655–661 (2010). (PDF File).

21

Georg E. Fantner, Roberto J. Barbero, David S. Gray and Angela M. Belcher

Kinetics of antimicrobial peptide activity measured on individual bacterial cells using high-speed atomic force microscopy

Nat. Nanotechnol. 5: 280-285 (2010). (PDF File).

22

Arivazhagan Rajendran, Masayuki Endo, Yousuke Katsuda, Kumi Hidaka, and Hiroshi Sugiyama

Programmed Two-Dimensional Self-Assembly of Multiple DNA Origami Jigsaw Pieces

ACS Nano 5(1): 665-671 (2010) (PDF File)

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2009

1

Jamie L. Gilmore, Yuki Suzuki, Gintautas Tamulaitis, Virginijus Siksnys, Kunio Takeyasu,and Yuri L. Lyubchenko

Single-Molecule Dynamics of the DNA-EcoRII Protein Complexes Revealed with High-Speed Atomic Force Microscopy

Biochemistry 48, 10492-10498 (2009). (PDF File)

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Masayuki Endo, Kumi Hidaka, Takayuki Kato, Keiichi Namba, and Hiroshi Sugiyama

DNA Prism Structures Constructed by Folding of Multiple Rectangular Arms

J. AM. CHEM. SOC. 131: 15570-15571 (2009). (PDF File)

3

Y. Shinozaki, K. Sumitomo, M. Tsuda, S. Koizumi,  K. Inoue, and K. Torimitsu

Direct observation of ATP-induced conformational changes of single P2X4 receptor/channel.

PLoS Biol. 7(5) e1000103 (9 pp) (2009). (PDF File)

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Igarashi, K., Koivula, A., Wada, M., Kimura, S., Penttilä, M., Samejima, M.

High speed atomic force microscopy visualizes processive movement of Trichoderma reesei cellobiohydrolase I on crystalline cellulose
J. Biol. Chem. 284 (52), pp. 36186-36190 (2009). (PDF File)

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I. Casuso, N. Kodera, C. Le Grimellec, T. Ando, and S. Scheuring

High-resolution high-speed contact mode atomic force microscopy movies of purple membrane.

Biophys J, 97 (5): 1354-1361 (2009). (PDf File)

6

D. Yamamoto, N. Nagura, S. Omote, M. Taniguchi, and T. Ando

Streptavidin 2D crystal substrates for visualizing biomolecular processes by atomic force microscopy.

Biophys. J. 97(8): 2358–2367 (2009). (PDF File)

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H. Yamashita, K. Voïtchovsky, T. Uchihashi, S. Antoranz Contera, J. F. Ryan, and T. Ando

Dynamics of bacteriorhodopsin 2D crystal observed by high-speed atomic force microscopy.

J. Struct. Biol. 167: 153-158 (2009).  http://www.sciencedirect.com/science/journal/10478477

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K. Shinohara, N. Kodera, and T. Ando

Single-molecule imaging of a micro-Brownian motion of a chiral helical ƒΞ-conjugated polymer as a molecular spring driven by thermal fluctuations.

Chem Lett. 38(7): 690-691 (2009). (PDF File)

9

M. Endo and H. Sugiyama

Three-dimensional DNA nanostructures constructed by folding of multiple rectangles

Nucleic Acids Symposium Series, 53, 81 (2009). (PDF File)

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2008

1

Hiroaki Sugasawa, Yukihiro Sugiyama, Takashi Morii, and Takao Okada

Dynamic Observation of 2686 bp DNA-BAL 31 Nuclease Interaction with Single Molecule Level Using High-Speed Atomic Force Microscopy

Jpn. J. Appl. Phys. 47(7),  6168-6172 (2008). (PDF File)

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D. Yamamoto, T. Uchihashi, N. Kodera, and T. Ando

Anisotropic diffusion of point defects in two-dimensional crystal of streptavidin observed by high-speed atomic force microscopy.

Nanotechnol. 19: 384009 (9 pp) (2008). (PDF file)

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A. Miyagi, Y. Tsunaka, T. Uchihashi, K. Mayanagi, S. Hirose, K. Morikawa, and T. Ando

Visualization of intrinsically disordered regions of proteins by high-speed atomic force microscopy.

Chem. Phys. Chem. 9(13):1859-1866 (2008). (PDF file)

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Y. Shinozaki, A. M. Siitonen, K. Sumitomo, K. Furukawa, and K. Torimitsu

Effect of Ca2þ on Vesicle Fusion on Solid Surface: An In vitro Model of Protein-Accelerated Vesicle Fusion

Jpn. J. Appl. Phys., 47, 6164 (2008).

2007

1

M. Kobayashi, K. Sumitomo, and K. Torimitsu

Real-time imaging of DNA-streptavidin complex formation in solution using a high-speed atomic force microscope

Ultramicroscopy 107(2-3): 184-190 (2007). (PDF FIle)

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Fast-scan atomic force microscopy reveals that the type III restriction enzyme EcoP151 is capable of DNA translocation and loping.

Neal Crampton, Masatoshi Yokokawa, David T.F. Dryden, J. Michael Edwardson, Desirazu N. Rao, Kunio Takeyasu, Shige H. Yshimura, and Robert M. Henderson

Proc. natl. Acad. Sci. USA 104:12755-12760 (2007). (PDF File)

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K. Shinohara, N. Kodera, and T. Ando

Single molecular imaging of a micro-Brownian motion and a bond scission of a supramolecular chiral ƒΞ-conjugated.

Chem. Lett. 36: 1378-1379 (2007).  (PDF file)

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2006

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Fast-scanning atomic force microscopy reveals the ATP/ADP-dependent conformational chnages of GroEL

Masatoshi Yokokawa, Chieko Wada, Toshio Ando, Nobuaki Sakai, Akira Yagi, Shige H. Yoshimura, and Kunio Takeyasu

EMBO J. 25:4567-4576 (2006). (PDF File)

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M. Yokokawa, S.H. Yoshimura, Y. Naito, T. Ando, A. Yagi, N. Sakai, and K. Takeyasu

Fast-scanning atomic force microscopy reveals the molecular mechanism of DNA cleavage by ApaI endonuclease. 

IEE Proc Nanobiotechnol. 153(4):60-66 (2006).

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T. Ando, T. Uchihashi, N. Kodera, A. Miyagi, R. Nakakita, H. Yamashita, and M. Sakashita. 

High-speed atomic force microscopy for studying the dynamic behavior of protein molecules at work.

Jpn. J. Appl. Phys. 45(3B):1897-1903 (2006). (PDF file)

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Prior to 2005

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T. Ando, N. Kodera, Y. Naito, T. Kinoshita, K. Furuta, and Y.Y. Toyoshima

A high-speed atomic force microscope for studying biological macromolecules in action.

ChemPhysChem 4:1196-1202 (2003). (PDF file)

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2005

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Sensor for direct measurement of interaction force in probe microscopy

F.L. Degertekin, A.G. Onaran, M. Balantekin, W. Lee, N.A. Hall, and C.F. Quate

Appl. Phys. Lett. 87:213109 (2005)@ (PDF file)

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