Elasticity of short DNA probed by magnetic tweezers with corrections for the variability in beads = 자성 비드의 변동성에 대한 보정이 된 자기 집게 기술을 통한 짧은 DNA의 탄성 연구

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Sub-micron elasticity of double-stranded DNA (dsDNA) governs central processes in cells such as interactions with DNA binding proteins, and therefore has been of interest for decades. Although magnetic tweezers (MT) has numerous advantages for studying DNA mechanics, the technique faced multiple challenges in probing short DNA fragments under 1 μm, hindering its application to nanoscale elastic measurements. Here, we introduce an MT-based scheme that enables precise force-extension measurements in the 100-nm regime. The method corrects for the underestimated extension resulting from magnetic bead anisotropy in a simplified, force-dependent manner. It also normalizes the variability in magnetic forces across multiple beads exploiting a DNA hairpin as a force standard. The method is simple and can easily be integrated into standard MT assays in real-time tracking. Applying this procedure, we measured the length- and sequence-dependent elasticity of short DNA down to 198 bp. The worm-like chain persistence length decreases considerably with contour length. The persistence length also steeply depends on GC content, suggesting a potential sequence-dependent mechanism for short-DNA elasticity.
Advisors
Park, YongKeunresearcher박용근researcher
Description
한국과학기술원 :물리학과,
Publisher
한국과학기술원
Issue Date
2019
Identifier
325007
Language
eng
Description

학위논문(박사) - 한국과학기술원 : 물리학과, 2019.2,[v, 55 p. :]

Keywords

Double-stranded DNA▼aSingle-molecule techniques▼aMagnetic tweezers▼aPersistence length▼aDNA hairpin; 이중가닥 DNA▼a단분자 기술▼a자기 집게▼a지속길이▼aDNA 헤어핀

URI
http://hdl.handle.net/10203/264646
Link
http://library.kaist.ac.kr/search/detail/view.do?bibCtrlNo=842035&flag=dissertation
Appears in Collection
PH-Theses_Ph.D.(박사논문)
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