Advanced Mechanical Models of DNA Elasticity

  • ID: 3515786
  • Book
  • 316 Pages
  • Elsevier Science and Technology
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Advanced Mechanical Models of DNA Elasticity includes coverage on 17 different DNA models and the role of elasticity in biological functions with extensive references. The novel advanced helicoidal model described reflects the direct connection between the molecule helix structure and its specific properties, including nonlinear features and transitions. It provides an introduction to the state of the field of DNA mechanics, known and widely used models with their short analysis, as well as coverage on experimental methods and data, the influence of electrical, magnetic, ionic conditions on the persistence length, and dynamics with viscosity influence. It then addresses the need to understand the nature of the non-linear overstretching transition of DNA under force and why DNA has a negative twist-stretch coupling.

  • Includes coverage of 17 contemporary models of DNA mechanics with analysis
  • Provides comparison of DNA and RNA mechanical features
  • Covers advances in experimental techniques including AFM, X-ray, and optical tweezers
  • Contains extensive references for further reading

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1. DNA molecule mechanical properties and models. Experimental and theoretical data. dsDNA and ssDNA, geometry and parameters: persistence length, helical pitch, base pairs. Features of known statistical models: Worm-like Chain (WLC), Freely Joint Chain (FJC), Discreet Persistent Chain (DPC), Coarse-grained model, Used mechanical models: Elastic rod, rod with overwinding wires, accordion bellows. Necessity of a new advanced model  based on Helicoidal nano-Sensor (HNS). This model has similar geometrical, linear and nonlinear mechanical features with the DNA molecule unlike models based on a wires wrapped elastic rod, accordion bellows, or an imaginary combination of "multiple soft and hard linear springs”, presented in some  recent publications.

2. Kinematics of elastic helicoidal beam. Elastic helicoid. Helix parameters. Specific rigidities.

3. Motion Transformation in a Thin Helicoidal Strip. Helicoidal pretwisted strip. Form coefficients. Effective cross sections.

4. Special features of the elastic sensors. Fatigue options. A coiled ribbon spring.

5. Vibrating helicoidal sensors. Twisting tape vibrations. Helicoidal multivibrators. The elastic longitudinal links. Internal friction (damping) asymmetry. State of stress, fluctuations. Quasi-Helicoids, Multivibrators with shells.

6. DNA linear nano-helicoidal model. Main features, Young's modulus, conditional Poisson's ratio. Persistence length, Medium influence. Twist-stretch coupling. Overwinding options.

7. Nonlinear DNA linear nano-helicoidal model. Thermomechanical fluctuations. Transition dsDNA to ssDNA at stretching. Force-stretch formula. 

8. Coiled ribbon model for ssDNA. Pretwisted strip-coiled ribbon chain. Ultimate stress at overstretching. Conclusions and recommendations.

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Tseytlin, Yakov M
YAKOV M. TSEYTLIN is a mechanical engineer, educator, and research scientist. Born in Leningrad, Russia; he arrived in the USA in 1992, becoming naturalized in 1997. His qualifications and professional positions include: MS in Mechanical Engineering, Leningrad Polytechnic Institute, PhD, 1965; Doctor of Technical Sciences, All-Russian Research Institute of Metrology, Russia, 1991; Chief of research laboratory, senior designer, senior and lead researcher, Leningrad Instrumental Plant, All-Russian Research Institute of Metrology, Russia; senior designer, senior researcher Federal Products Co. USA, 1992; project engineer in Automatic Machinery Co. US, 1999; assistant to associate professor in Leningrad Polytechnic Institute; visiting professor in Leningrad Institute of Precise Mechanics and Optics; Manager and Engineer, All-Russian Institute of Advanced Education in Standardization and Metrology;

Adviser and Opponent of Graduate Dissertations in Central Research Institute for Fuel Apparatus, All-Russian Research Institute of Metrology, Leningrad Polytechnic Institute. He has contributed numerous articles to professional journals, and authored 4 monographs. He is also a member of International Society of Automation (recognition awards 1998-2012, ISA). His achievements include development of methods and concepts in micro elasticity, DNA elasticity modeling, atomic force microscopy, and information criterion of measurement uncertainty negligibility.

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