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Nanomechanics of Materials and Biomaterials >> Content Detail



Study Materials



Readings

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This page lists the assigned readings for each lecture session, plus the paper for the podcast associated with some sessions.

There is no single required textbook for this course. Israelachvili's 1992 book (as cited in the table) provides a good treatment of some fundamentals, but many reading assignments are from more recent published papers.


LEC #TOPICSREADINGSPODCAST PAPERS
1Introduction to nanomechanics

Scanning electron microscopy images of bacteria on the head of a pin.

Feynman, R. P. "There's Plenty of Room at the Bottom." December 29th 1959 Annual meeting of the American Physical Society at the California Institute of Technology (Caltech).

Drexler, K. E. "Engines of Construction." Chapter 1 in Engines of Creation: The Coming Era of Nanotechnology. New York, NY: Doubleday, New York, 1987. ISBN: 9780385199735.

"Nanotechnology: Shaping the World Atom by Atom." Report by the National Science and Technology Council (NSTC) Committee on Technology The Interagency Working Group on Nanoscience, Engineering and Technology (IWGN) (1999).

Shao, J. "Measuring Piconewton Forces and Its Application in Cellular and Molecular Biomechanics." Advances in Biomechanics (2001): 47-51.

2High resolution force spectroscopy (HRFS): The force transducer

Van Vliet, K. J., G. Bao, and S. Suresh. "The Biomechanics Toolbox: Experimental Approaches for Living Cells and Biomolecules." Acta Materialia 51 (2003): 5881-5905.

Ortiz, C. Appendix to 3.052 Lecture 2: Cantilever Summary (PDF)

"Basic Introduction to Nanopositioning with Piezoelectric Technology." Tutorial by Physik Instruments, Inc. (PDF)#

3Additional nanomechanics instrumentation components

Heinz, W. F., and J. H. Hoh. "Spatially Resolved Force Spectroscopy of Biological Surfaces using the Atomic Force Microscope." Tibtech 17 (1999): 143-150.

Podcast: Lipid bilayer formation

Associated paper: Pera, I., and J. Fritz. "Sensing Lipid Bilayer Formation and Expansion with a Microfabricated Cantilever Array." Langmuir 23, no. 3 (January 30, 2007): 1543-7.

4Force versus distance curves

"Probing Nano-Scale Forces with the Atomic Force Microscope." Veeco Metrology Group. (PDF)#

Binning, G., C. F. Quate, and C. Gerber. "Atomic Force Microscope." Physical Review Letters 56 (1986): 930-933.

5Atomic force microscope (AFM) imaging

Baselt, D. "Atomic Force Microscopy: Measuring Intermolecular Interaction Forces." California Institute of Technology, 1993 PhD Thesis, NRL code 6177.

Scanning probe/Atomic force microscopy: Technology overview and update. Veeco Metrology Group. (PDF - 1.3 MB)#

AFM review articles bibliography (C. Ortiz supplementary course material)

Amazon logo Karp, G. "Covalent Bonds" (Section 2.1), and "Noncovalent Bonds" (Section 2.2) in Cell and Molecular Biology. 2nd ed. New York, NY: John Wiley and Sons, Inc., 1999. ISBN: 9780471192794.

6AFM imaging II: Artifacts and applications

Podcast: Structured water layers

Associated paper: Higgins, M. J., et al. "Structured Water Layers Adjacent to Biological Membranes." Biophys J 91 (2006): 2532-2542.

7Single cell mechanics

Dao, M., et al. "Mechanics of the Human Red Blood Cell Deformed by Optical Tweezers." J Mech Phys Solids 53 (2003): 2259-2280.

Podcast: Mechanics of diseased single cells: Malaria

Associated paper: Suresh, et al. "Connections Between Single-cell Biomechanics and Human Disease States: Gastrointestinal Cancer and Malaria." Acta Biomaterialia 1 (2005): 15-30.

8Qualitative introduction to intra - and intermolecular forces

Ortiz, C. "Qualitative Summary of Intra and Intermolecular Forces." MIT Department of Materials Science and Engineering 3.052 Nanomechanics of Materials and Biomaterials; Lecture Notes.

Amazon logo Ashby, M. F., and D. R. H. Jones. Chapter 3 "The Elastic Moduli," and Chapter 4 "Bonding Between Atoms." In Engineering Materials 1 - An Introduction to Properties, Applications, and Design. 3rd ed. Burlington MA: Elsevier Butterworth-Heinemann, 2005. ISBN: 9780750663809.

Amazon logo Van Vlack, L. H. "Introduction to Materials: Review of Chemical Bonding." Chapter 2 in Elements of Materials Science and Engineering. 5th ed. Boston, MA: Addison-Wesley, 1985. ISBN: 9780201080865.

Amazon logo Israelachvili, J. "Classification of Forces." Section 2.6 in Intermolecular and Surface Forces. New York, NY: Academic Press, 1992. ISBN: 9780123751812.

9Quantitative description of intra - and intermolecular forces

Amazon logo Van Vlack, L. H. "Introduction to Materials: Review of Chemical Bonding." Chapter 2 in Elements of Materials Science and Engineering. 5th ed. Boston, MA: Addison-Wesley, 1985. ISBN: 9780201080865.

Amazon logo Israelachvili, J. "Classification of Forces." Section 2.6 in Intermolecular and Surface Forces. New York, NY: Academic Press, 1992. ISBN: 9780123751812.

———. "Contrasts between Intermolecular, Interparticle, and Intersurface Forces." Chapter 10 in Intermolecular and Surface Forces.

Malescio, G. "Intermolecular Potentials - Past, Present, and Future." Nature Materials 2 (2003): 501.

Podcast: Heparin biosensors

Associated Paper: Milovic, N. M., et al. "Monitoring of Heparin and its Low-molecular-weight Analogs by Silicon Field Effect." PNAS 103, no. 36 (2006): 13374-13379.

10Molecule - surface interactions

Israelachvili, J. "Contrasts Between Intermolecular, Interparticle, and Intersurface Forces." Chapter 10 in Intermolecular and Surface Forces.

———. "Van der Waals Forces Between Surfaces: The Force Laws for Bodies of Different Geometries - The Hamaker Constant." Chapter 11.1 in Intermolecular and Surface Forces. pp. 176-179.

"Table 9.1: Hamaker Constant for various materials." From Freitas, Robert J. Nanomedicine, Volume I: Basic Capabilities. Georgetown, TX: Landes Bioscience, 1999. (JPG)

11Colloids and interparticle potentials

Lewis, J. A. "Colloidal Processing of Ceramics." J Am Ceram Soc 83, no. 10 (2000): 2341-59.

Podcast: Boundary lubrication

Associated Paper: Briscoe, W. H., et al. "Boundary Lubrication Under Water." Nature 444 (2006): 191-194.

12Van der Waals forces at work: Gecko feet adhesion

Autumn, K. "How Gecko Toes Stick." American Scientist 94 (2006): 124-133.

Tian, Yu., et al. "Adhesion and Friction in Gecko Toe Attachment and Detachment." PNAS 103, no. 51 (2006): 19320-5.

Midterm exam - during class time 1 hour
13Midterm exam solutions reviewDupres, V. et al. "Nanoscale Mapping and Functional Analysis of Individual Adhesins on Living Bacteria." Nature Methods 2, no. 7 (2005): 515-520.
14The electrical double layer (EDL) - part 1

Israelachvili, J. "Electrostatic Forces Between Surfaces in Liquids." Chapter 12 in Intermolecular and Surface Forces.

Buckwalter, J. A., H. J. Mankin, and A. J. Grodinzinsky. "Articular Cartilage and Osteoarthritis." AAOS Instructional Course Lectures 54 (2005): 465-480.

Podcast: Boundary lubrication

Associated Paper: Briscoe, W. H., et al. "Boundary Lubrication Under Water." Nature 444 (2006): 191-194.

15The electrical double layer (EDL) - part 2

Israelachvili, J. "Electrostatic Forces Between Surfaces in Liquids." Chapter 12 in Intermolecular and Surface Forces.

Buckwalter, J. A., H. J. Mankin, and A. J. Grodinzinsky "Articular Cartilage and Osteoarthritis." AAOS Instructional Course Lectures 54 (2005): 465-480.

Podcast: Cartilage aggrecan

Associated Paper: Dean, D., et al. "Compressive Nanomechanics of Opposing Aggrecan Macromolecules." J Biomech 39 (2006): 2555-2565.

16Nanomechanics of cartilage

Ortiz, C. "A Review of Elasticity Models for the Extension of Single Polymer Chains." MIT Department of Materials Science and Engineering 3.052 Nanomechanics of Materials and Biomaterials; supplementary course material.

Treloar, L. R. G. "The Elasticity of Long Chain Molecules," and "Non-Gaussian Chain Statistics and Network Theory." Chapters 3 and 6 in The Physics of Rubber Elasticity. Oxford, UK: Clarendon Press, 1975.

Podcast: Nanomechanics of chondrocytes

Associated Paper: Ng, Laurel, et al. "Nanomechanical Properties of Individual Chondrocytes and Their Developing Growth Factor-stimulated Pericellular Matrix." J Biomech 40, no. 5 (2007): 1011-1023.

17Protein - surface interactions

Marko, J. F., and E. D. Siggia. "Stretching DNA." Macromolecules 28 (1995): 8759-8770.

Kratky, O. and G. Porod. "X-ray Investigation of Dissolved Chain Molecules." Recueil des Travaux Chimiques des Pays-Bas et de la Belgique (Recl Trav Chim Pas-Bas) 68 (1949): 1106-1122.

18Nanomechanics and biocompatibility: Protein - biomaterial interactions, part 2Same as prior session.
19Elasticity of single polymer chains: Theoretical formulations

Fixman, M. and J. Kovac. "Polymer Conformational Statistics. III. Modified Gaussian Models of Stiff Chains." J Chem Phys 58 (1973): 1574-1568.

Bouchiat, C., M. D. Wang, J. F. Allemand, T. Strick, S. M. Block, and V. Croquette. "Estimating the Persistence Length of a Worm-Like Chain Molecule from Force-Extension Measurements." Biophysical Journal 76 (1999): 409-413.

Odijk, T. "Stiff Chains and Filaments under Tension." Macromolecules 28 (1995): 7016-7018.

Rief, M., and H. Helmut Grubmuller. "Force Spectroscopy of Single Biomolecules." ChemPhysChem 3 (2002): 255-261.

Fisher, T. E., A. F. Oberhauser, M. Carrion-Vazquez, P. E. Marszalek, and J. M. Fernandez. "The Study of Protein Mechanics With the Atomic Force Microscope." TIBS 24 (1999): 379-384.

Austin, R. H., J. P. Brody, E. C. Cox, T. Duke, and W. Volkmuth. "Stretch Genes." Physics Today 50 (1997): 32-38.

Clausen-Schaumann, H., M. Rief, C. Tolksdorf, and H. E. Gaub. "Mechanical Stability of Single DNA Molecules." Biophysical Journal 78 (2000): 1997-2007.

Smith, B. L., T. E. Schaffer, M. Viani, J. B. Thompson, N. A. Frederick, J. Kindt, A. Belcher, G. D. Stucky, D. E. Morse, and P. K. Hansma. "Molecular Mechanistic Origin of the Toughness of Natural Adhesives, Fibres and Composites." Nature 399 (1999): 761-763.

Van Landingham, M., J. S. Villarubia, W. F. Guthrie, and G. F. Meyers. "Nanoindentation of Polymers: An Overview." Macromolecular Symposia 167 (2001): 15-43.

Podcast: Elasticity of fibronectin

Associated Paper: Abu-Lail, N. I., et al. "Understanding the Elasticity of Fibronectin Fibrils: Unfolding Strengths of FN-III and GFP Domains Measured by Single Molecule Force Spectroscopy." Matrix Biology 25 (2006): 175-184.

20Theoretical aspects of single molecule force spectroscopy: Extensibility and the worm-like chain (WLC)Same as prior session.

Podcast: Sacrificial bonding

Associated Paper: Fantner, G. E., et al. "Sacrificial Bonds and Hidden Length: Unraveling Molecular Mesostructures in Tough Materials." Biophys J 90 (2006): 1411-1418.

21Single chain elasticity of biomacromolecules: The giant protein titin and DNA
22Theoretical aspects of nanoindentation

Oliver, W. C., and G. M. Pharr. "An Improved Technique for Determining Hardness and Elastic-modulus Using Load and Displacement Sensing Indentation Expermiments." J Mater Res 7, no. 6 (June 1992): 1564-1583.

Sneddon, Ian. "The Relation Between Load and Penetration in the Axisymmetric Boussinesq Problem for a Punch of Arbitrary Profile." Journal of Engineering Science 3 (1965): 47-57.

23Nanoindentation 2: Oliver-Pharr method and one literature example: NacreBruet, B. J. F., et al. "Nanoscale Morphology and Indentation of Individual Nacre Tablets From the Gastropod Mollusc Trochus Niloticus." J Mater Res 20, no. 9 (September 2005): 2400-2419.
24Intermolecular interactions in motility of a biological spring (Guest lecture by Danielle France, course TA)Mahadevan, L, and P. Matsudaira. "Motility Powered by Supramolecular Springs and Ratchets." Science 288 (April 7, 2000): 95-99.
Final exam during finals week

 








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