Thermophoretic Forces on DNA Measured with a Single-Molecule Spring Balance

Pedersen, Jonas Nyvold; Lüscher, Christian; Marie, Rodolphe; Thamdrup, Lasse Højlund Eklund; Flyvbjerg, Henrik

doi:10.1103/physrevlett.113.268301

Cited by 20 publications

(21 citation statements)

References 44 publications

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“…An experimental demonstration of such stretching is provided in ref. 34, which shows DNA stretching where it crosses a potential barrier created by a conservative thermophoretic force field.…”

Section: Discussionmentioning

confidence: 99%

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Transition state theory demonstrated at the micron scale with out-of-equilibrium transport in a confined environment

et al. 2016

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Transition state theory (TST) provides a simple interpretation of many thermally activated processes. It applies successfully on timescales and length scales that differ several orders of magnitude: to chemical reactions, breaking of chemical bonds, unfolding of proteins and RNA structures and polymers crossing entropic barriers. Here we apply TST to out-of-equilibrium transport through confined environments: the thermally activated translocation of single DNA molecules over an entropic barrier helped by an external force field. Reaction pathways are effectively one dimensional and so long that they are observable in a microscope. Reaction rates are so slow that transitions are recorded on video. We find sharp transition states that are independent of the applied force, similar to chemical bond rupture, as well as transition states that change location on the reaction pathway with the strength of the applied force. The states of equilibrium and transition are separated by micrometres as compared with angstroms/nanometres for chemical bonds.

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Section: Discussionmentioning

confidence: 99%

“…In refs 29, 30, 31, 32, 33, and in essence also in ref. 34, each monomer experiences the same potential energy barrier. Stretching lowers the energy barrier for the whole polymer by placing fewer monomers on top of the barrier, while stretching also costs a decrease in entropy, since some degrees of freedom are suppressed.…”

Section: Discussionmentioning

confidence: 99%

Transition state theory demonstrated at the micron scale with out-of-equilibrium transport in a confined environment

et al. 2016

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“…We have previously shown, using imaging of a temperature dependent fluorescent dye, that the laser spot diameter is 5 µm 10 and typically produces a temperature rise with a stretched exponential profile and a FWHM of 7 µm within a few hundreds nanometers from the absorber layer itself (see the supplementary information in Ref. 17). At high power, the optothermal actuation is able to locally raise the temperature such that the polymer melts.…”

Section: Resultsmentioning

confidence: 99%

Optothermally actuated capillary burst valve

Eriksen

Bilenberg

Marie

2017

Review of Scientific Instruments

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We demonstrate the optothermal actuation of individual capillary burst valves in an all-polymer microfluidic device. The capillary burst valves are realised in a planar design by introducing a fluidic constriction in a microfluidic channel of constant depth. We show that a capillary burst valve can be burst by raising the temperature due to the temperature dependence of the fluid surface tension. We address individual valves by using a local heating platform based on a thin film of near infrared absorber dye embedded in the lid used to seal the microfluidic device [L. H. Thamdrup et al., Nano Lett. 10, 826–832 (2010)]. An individual valve is burst by focusing the laser in its vicinity. We demonstrate the capture of single polystyrene 7 μm beads in the constriction triggered by the bursting of the valve.

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“…The selected scaffold strand (M13mp18) has a length of 7249 bases, and thus, formally complies with the required minimum scaffold length. However, when the DNA origami ring is thought to act as thermophoretic active component of a self‐thermophoretic swimmer, the scaffold strand should be completely folded within the origami, i.e., no single‐stranded scaffold parts should protrude from the DNA origami object. Here, this problem is solved by (i) increasing the height of the ring and (ii) using the rest of the scaffold strand to from a structure which is hidden inside of the ring, and thus, does not influence the thermophoretic movement of the swimmer.…”

Section: Evolution Of the Design Of Dna Origami Ring Structuresmentioning

confidence: 99%

DNA Origami Ring Structures as Construction Element of Self‐Thermophoretic Swimmers

Heerwig

Schubel

Schirmer

et al. 2019

Physica Status Solidi (a)

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This work reports on the construction of mechanically stable DNA origami ring structures that can act as thermophoretic active elements of self‐thermophoretic nanoswimmers or as coupling elements either to other thermophoretic active particles or to cargo elements. The DNA origami structures are designed according to given geometric parameters and physical requirements, synthesized, as well as characterized by agarose gel electrophoresis and transmission electron microscopy. The tailored binding of gold nanoparticles is proven by STEM.

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Thermophoretic Forces on DNA Measured with a Single-Molecule Spring Balance

Cited by 20 publications

References 44 publications

Transition state theory demonstrated at the micron scale with out-of-equilibrium transport in a confined environment

Transition state theory demonstrated at the micron scale with out-of-equilibrium transport in a confined environment

Optothermally actuated capillary burst valve

DNA Origami Ring Structures as Construction Element of Self‐Thermophoretic Swimmers

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