1 |
Grashoff C, Hoffman BD, Brenner MD et al (2010) Measuring mechanical tension across vinculin reveals regulation of focal adhesion dynamics. Nature 466, 263-266
DOI
|
2 |
Hohng S, Zhou R, Nahas MK et al (2007) Fluorescence-Force Spectroscopy Maps Two-Dimensional Reaction Landscape of the Holliday Junction. Science 318, 279-283
DOI
|
3 |
Zhou R, Kozlov Alexander G, Roy R et al (2011) SSB Functions as a Sliding Platform that Migrates on DNA via Reptation. Cell 146, 222-232
DOI
|
4 |
Comstock MJ, Whitley KD, Jia H et al (2015) Direct observation of structure-function relationship in a nucleic acid-processing enzyme. Science 348, 352-354
DOI
|
5 |
Heller I, Sitters G, Broekmans OD et al (2013) STED nanoscopy combined with optical tweezers reveals protein dynamics on densely covered DNA. Nat Methods 10, 910-916
DOI
|
6 |
Graham JS, Johnson RC and Marko JF (2011) Concentrationdependent exchange accelerates turnover of proteins bound to double-stranded DNA. Nucleic Acids Res 39, 2249-2259
DOI
|
7 |
Hugel T, Michaelis J, Hetherington CL et al (2007) Experimental Test of Connector Rotation during DNA Packaging into Bacteriophage Capsids. PLoS Biol 5, e59
DOI
|
8 |
Madariaga-Marcos J, Hormeno S, Pastrana CL, Fisher GLM, Dillingham MS and Moreno-Herrero F (2018) Force determination in lateral magnetic tweezers combined with TIRF microscopy. Nanoscale 10, 4579-4590
DOI
|
9 |
Lee M, Kim SH and Hong SC (2010) Minute negative superhelicity is sufficient to induce the B-Z transition in the presence of low tension. Proc Natl Acad Sci U S A 107, 4985-4990
DOI
|
10 |
Loparo JJ, Kulczyk AW, Richardson CC and van Oijen AM. (2011) Simultaneous single-molecule measurements of phage T7 replisome composition and function reveal the mechanism of polymerase exchange. Proc Natl Acad Sci U S A 108, 3584-3589
DOI
|
11 |
Xie XS and Lu HP (1999) Single-molecule enzymology. J Biol Chem 274, 15967-15970
DOI
|
12 |
Miller H, Zhou Z, Shepherd J, Wollman AJM and Leake MC (2018) Single-molecule techniques in biophysics: a review of the progress in methods and applications. Rep Prog Phys 81, 024601
DOI
|
13 |
Zlatanova J and van Holde K (2006) Single-Molecule Biology: What Is It and How Does It Work? Mol Cell 24, 317-329
DOI
|
14 |
Deniz AA, Mukhopadhyay S and Lemke EA (2008) Single-molecule biophysics: at the interface of biology, physics and chemistry. J Royal Soc Interface 5, 15-45
DOI
|
15 |
Juette MF, Terry DS, Wasserman MR et al (2014) T he bright future of single-molecule fluorescence imaging. Curr Opin Chem Biol 20, 103-111
DOI
|
16 |
Neuman KC and Nagy A (2008) Single-molecule force spectroscopy: optical tweezers, magnetic tweezers and atomic force microscopy. Nat Methods 5, 491-505
DOI
|
17 |
Morin JA, Cao FJ, Lazaro JM et al (2012) Active DNA unwinding dynamics during processive DNA replication. Proc Natl Acad Sci U S A 109, 8115-8120
DOI
|
18 |
Abbondanzieri EA, Greenleaf WJ, Shaevitz JW, Landick R and Block SM (2005) Direct observation of base-pair stepping by RNA polymerase. Nature 438, 460-465
DOI
|
19 |
Wen JD, Lancaster L, Hodges C et al (2008) Following translation by single ribosomes one codon at a time. Nature 452, 598-603
DOI
|
20 |
Strick TR, Croquette V and Bensimon D (2000) Singlemolecule analysis of DNA uncoiling by a type II topoisomerase. Nature 404, 901-904
DOI
|
21 |
Ribeck N and Saleh OA (2008) Multiplexed singlemolecule measurements with magnetic tweezers. Rev Sci Instrum 79, 094301
DOI
|
22 |
Fan J, Leroux-Coyau M, Savery NJ and Strick TR (2016) Reconstruction of bacterial transcription-coupled repair at single-molecule resolution. Nature 536, 234-237
DOI
|
23 |
Neuman KC, Lionnet T and Allemand JF (2007) S ingle-Molecule Micromanipulation Techniques. Annu Rev Mater Res 37, 33-67
DOI
|
24 |
Padgett M and Di Leonardo R (2011) Holographic optical tweezers and their relevance to lab on chip devices. Lab Chip 11, 1196
DOI
|
25 |
De Vlaminck I, Henighan T, van Loenhout MT, Burnham DR and Dekker C (2012) Magnetic forces and DNA mechanics in multiplexed magnetic tweezers. PLoS One 7, e41432
DOI
|
26 |
Sitters G, Kamsma D, Thalhammer G, Ritsch-Marte M, Peterman EJG and Wuite GJL (2015) Acoustic force spectroscopy. Nat Methods 12, 47-50
DOI
|
27 |
Kulczyk AW, Tanner NA, Loparo JJ, Richardson CC and van Oijen AM (2010) Direct observation of enzymes replicating DNA using a single-molecule DNA stretching assay. J Vis Exp 36, 1689
|
28 |
Thompson RE, Larson DR and Webb WW (2002) Precise nanometer localization analysis for individual fluorescent probes. Biophys J 82, 2775-2783
DOI
|
29 |
van Oijen AM, Blainey PC, Crampton DJ, Richardson CC, Ellenberger T and Xie XS (2003) Single-molecule kinetics of lambda exonuclease reveal base dependence and dynamic disorder. Science 301, 1235-1238
DOI
|
30 |
Lee J-B, Hite RK, Hamdan SM, Sunney Xie X, Richardson CC and van Oijen AM (2006) DNA primase acts as a molecular brake in DNA replication. Nature 439, 621-624
DOI
|
31 |
Jeon Y, Kim D, Martin-Lopez JV et al (2016) Dynamic control of strand excision during human DNA mismatch repair. Proc Natl Acad Sci U S A 113, 3281-3286
DOI
|
32 |
Hamdan SM, Loparo JJ, Takahashi M, Richardson CC and van Oijen AM (2009) Dynamics of DNA replication loops reveal temporal control of lagging-strand synthesis. Nature 457, 336-339
DOI
|
33 |
Tanner NA, Hamdan SM, Jergic S et al (2008) Singlemolecule studies of fork dynamics in Escherichia coli DNA replication. Nat Struct Mol Biol 15, 998
|
34 |
Park J, Jeon Y, In D, Fishel R, Ban C and Lee JB (2010) Single-molecule analysis reveals the kinetics and physiological relevance of MutL-ssDNA binding. PLoS One 5, e15496
DOI
|
35 |
Jergic S, Horan NP, Elshenawy MM et al (2013) A direct proofreader-clamp interaction stabilizes the Pol III replicase in the polymerization mode. EMBO J 32, 1322-1333
DOI
|
36 |
Park J, Jergic S, Jeon Y et al (2018) Dynamics of Proofreading by the E. coli Pol III Replicase. Cell Chem Biol 25, 57-66.e54
DOI
|
37 |
Elshenawy MM, Jergic S, Xu ZQ et al (2015) Replisome speed determines the efficiency of the Tus-Ter replication termination barrier. Nature 525, 394-398
DOI
|
38 |
Harada Y, Arai Y, Yasuda R et al (1999) Tying a molecular knot with optical tweezers. Nature 399, 446-448
DOI
|
39 |
Bianco PR, Brewer LR, Corzett M, et al (2001) Processive translocation and DNA unwinding by individual RecBCD enzyme molecules. Nature 409, 374-378
DOI
|
40 |
Sarangapani KK, Duro E, Deng Y et al (2014) Sister kinetochores are mechanically fused during meiosis I in yeast. Science 346, 248-251
DOI
|
41 |
Chang M , Oh J, Kim Y , Hohng S and Lee JB (2017) Extended depth of field for single biomolecule optical imaging-force spectroscopy. Opt Express 25, 32189
DOI
|