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Michael_Darcy_Thesisfinal.pdf (17.6 MB)

ETD Abstract Container

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High Force Applications of DNA Origami Devices

Darcy, Michael Augusto
http://rave.ohiolink.edu/etdc/view?acc_num=osu1619092851712077

Abstract Details

2021, Doctor of Philosophy, Ohio State University, Physics.
The ability to apply and measure high forces (≥10pN) on the nanometer scale is critical to the ongoing development of nanomedicine, molecular robotics, and the understanding of biological processes such as chromatin condensation, membrane deformation, and molecular motors [1] [2] [3]. Current force spectroscopy techniques rely on micron-sized handles to apply forces, which can limit applications within nanofluidic devices or cellular environments [4]. To overcome these limitations, I used deoxyribonucleic (DNA) origami to self-assemble a nanocaliper, building on previous designs[5] [6]. I characterize the nanocaliper via a short double-stranded (ds)DNA with each strand attached to opposite arms of the device, via device equilibrium state, output force, and dynamics, to understand the effects of sequence, vertex design, and strut length on the device properties. I also produce nucleosomes, hexasomes, and an alternate dsDNA, which were then measured in the device, yielding mechanistic insight into the free energy landscape of each. I measure forces greater than 20 pN applied by the device with a nanometer dynamic range and 1 to 10 pN/nm stiffness. These high performing characteristics which expand the capabilities of existing force spectroscopy techniques as well as those of DNA origami devices.
Michael Poirier (Advisor)
Ralf Bundschuh (Committee Member)
Carlos Castro (Committee Member)
Ezekiel Johnston-Halperin (Committee Member)
165 p.
Biochemistry; Biophysics; Nanoscience; Physics
DNA; nanotechnology; force spectroscopy; biophysics; chromatin; Hidden Markov Modeling; fluorescence microscopy; TR-FRET; biochemistry; nanocaliper; DNA origami; high force application; direct force measurement; transition kinetics

Recommended Citations

Citations

  • Darcy, M. A. (2021). High Force Applications of DNA Origami Devices [Doctoral dissertation, Ohio State University]. OhioLINK Electronic Theses and Dissertations Center. http://rave.ohiolink.edu/etdc/view?acc_num=osu1619092851712077

    APA Style (7th edition)

  • Darcy, Michael. High Force Applications of DNA Origami Devices. 2021. Ohio State University, Doctoral dissertation. OhioLINK Electronic Theses and Dissertations Center, http://rave.ohiolink.edu/etdc/view?acc_num=osu1619092851712077.

    MLA Style (8th edition)

  • Darcy, Michael. "High Force Applications of DNA Origami Devices." Doctoral dissertation, Ohio State University, 2021. http://rave.ohiolink.edu/etdc/view?acc_num=osu1619092851712077

    Chicago Manual of Style (17th edition)

osu1619092851712077
173
© 2021, all rights reserved.
This open access ETD is published by The Ohio State University and OhioLINK.