Probing the mechanism of material specific peptides for optical biosensors

Progress in Biomedical Optics and Imaging - Proceedings of SPIE

Volumn 8765, Issue , 2013, Pages

  Ramakrishnan, Sathish K ^a   Estephan, Elias ^a   Martin, Marta ^a   Cloitre, Thierry ^a   Gergely, Csilla ^a  

^a UNIVERSITÉ MONTPELLIER 2   (France)

Author keywords

Bio nano interfaces; DFT MD simulations; Peptide semiconductor interactions; Phage display; Silicon

Indexed keywords

BIO-NANO INTERFACES; CLASSICAL MOLECULAR DYNAMICS; DFT-MD SIMULATIONS; EXPERIMENTAL EVIDENCE; MOLECULAR RECOGNITION FUNCTIONS; PHAGE DISPLAY; SEMI-CONDUCTOR SURFACES; SURFACE INTERACTIONS;

BINDING ENERGY; BIOCOMPATIBILITY; BIOMIMETIC PROCESSES; BIOMOLECULES; BIOSENSORS; DESIGN FOR TESTABILITY; MOLECULAR DYNAMICS; SEMICONDUCTING SILICON; SEMICONDUCTOR DEVICES; SILICON; SURFACES;

PEPTIDES;

EID: 84881186591     PISSN: 16057422     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1117/12.2017464     Document Type: Conference Paper

References (43)

1. Estephan, E., Larroque, C, Cuisinier, F. J. G., Balint, Z., and Gergely, C, "Tailoring GaN semiconductor surfaces with biomolecules," J Phys ChemB, 112(29), 8799-8805 (2008).
2. Estephan, E., Saab, M. B., Larroque, C, Martin, M, Olsson, F., Lourdudoss, S., and Gergely, C, "Peptides for functionalization of InP semiconductors," J Colloid Interf Sci, 337(2), 358-363 (2009).
3. Mcconnell, S. J., and Hoess, R. H., "Tendamistat as a Scaffold for Conformationally Constrained Phage Peptide Libraries," J Mol Biol, 250(4), 460-470 (1995).
4. Mannoor, M. S., Zhang, S. Y., Link, A. J., and McAlpine, M. C, "Electrical detection of pathogenic bacteria via immobilized antimicrobial peptides," P Natl Acad Sci USA, 107(45), 19207-19212 (2010).
5. Sarikaya, M., Tamerler, C, Schwartz, D. T., and Baneyx, F. O., "Materials assembly and formation using engineered polypeptides," Annu Rev Mater Res, 34, 373-408 (2004).
6. Whaley, S. R., English, D. S., Hu, E. L., Barbara, P. F., and Belcher, A. M., "Selection of peptides with semiconductor binding specificity for directed nanocrystal assembly," Nature, 405(6787), 665-668 (2000).
7. Lee, S. W., Mao, C. B., Flynn, C. E., and Belcher, A. M., "Ordering of quantum dots using genetically engineered viruses," Science, 296(5569), 892-895 (2002).
8. Tamerler, C, Kacar, T., Sahin, D., Fong, H., and Sarikaya, M., "Genetically engineered polypeptides for inorganics: A utility in biological materials science and engineering," Mat Sci Eng C-Bio S, 27(3), 558-564 (2007).
9. Sarikaya, M., Tamerler, C, Jen, A. K. Y., Schulten, K., and Baneyx, F., "Molecular biomimetics: nanotechnology through biology," Nat Mater, 2(9), 577-585 (2003).
10. Thai, C. K., Dai, H. X., Sastry, M. S. R., Sarikaya, M., Schwartz, D. T., and Baneyx, F., "Identification and characterization of Cu20- and ZnO-binding polypeptides by Escherichia coli cell surface display: Toward an understanding of metal oxide binding," Biotechnol Bioeng 87(2), 129-137 (2004).
11. Braden, B. C, Goldbaum, F. A., Chen, B. X., Kirschner, A. N., Wilson, S. R., and Erlanger, B. F., "X-ray crystal structure of an anti-Buckminsterfullerene antibody Fab fragment: Biomolecular recognition of C-60," P Natl Acad Sci USA, 97(22), 12193-12197 (2000).
12. Peelle, B. R., Krauland, E. M., Wittrup, K. D., and Belcher, A. M., "Probing the interface between biomolecules and inorganic materials using yeast surface display and genetic engineering," Acta Biomater, 1(2), 145-154 (2005).
13. Smith, G. P., and Petrenko, V. A., "Phage display," Chem Rev, 97(2), 391-410 (1997).
14. Cesareni, G., "Peptide Display on Filamentous Phage Capsids - a New Powerful Tool to Study Protein Ligand Interaction," Febs Lett, 307(1), 66-70 (1992).
15. Griffiths, A. D., "Production of Human-Antibodies Using Bacteriophage," Curr Opin Immunol, 5(2), 263-267 (1993).
16. Winter, G., Griffiths, A. D., Hawkins, R. E., and Hoogenboom, H. R., "Making Antibodies by Phage Display Technology," Annu Rev Immunol, 12, 433-455 (1994).
17. Burton, D. R., "Phage Display," Immunotechnology, 1(2), 87-94 (1995).
18. Neri, D., Petrul, H., and Roncucci, G., "Engineering Recombinant Antibodies for Immunotherapy," Cell Biophys, 27(1), 47-61 (1995).
19. Estephan, E., Saab, M.-B., Agarwal, V., Cuisinier, F. J. G., Larroque, C, and Gergely, C, "Peptides for the Biofunctionalization of Silicon for Use in Optical Sensing with Porous Silicon Microcavities," Advanced Functional Materials, 21(11), 2003-2011 (2011).
20. Shevchenko, E. V., Talapin, D. V., Kotov, N. A., O'Brien, S., and Murray, C. B., "Structural diversity in binary nanoparticle superlattices," Nature, 439(7072), 55-59 (2006).
21. Brown, S., "Metal-recognition by repeating polypeptides," Nat Biotechnol, 15(3), 269-272 (1997).
22. Naik, R. R., Stringer, S. J., Agarwal, G., Jones, S. E., and Stone, M. O., "Biomimetic synthesis and patterning of silver nanoparticles," Nat Mater, 1(3), 169-172(2002).
23. Sano, K. I., and Shiba, K., "A hexapeptide motif that electrostatically binds to the surface of titanium," J Am Chem Soc, 125(47), 14234-14235 (2003).
24. Naik, R. R., Brott, L. L., Clarson, S. J., and Stone, M. O., "Silica-precipitating peptides isolated from a combinatorial phage display peptide library," J Nanosci Nanotechno, 2(1), 95-100 (2002).
25. Flynn, C. E., Mao, C. B., Hayhurst, A., Williams, J. L., Georgiou, G., Iverson, B., and Belcher, A. M., "Synthesis and organization of nanoscale II-VI semiconductor materials using evolved peptide specificity and viral capsid assembly," J Mater Chem, 13(10), 2414-2421 (2003).
26. Estephan, E., Larroque, C, Bee, N., Martineau, P., Cuisinier, F. J. G., Cloitre, T., and Gergely, C, "Selection and Mass Spectrometry Characterization of Peptides Targeting Semiconductor Surfaces," Biotechnol Bioeng 104(6), 1121-1131(2009).
27. Gungormus, M., Fong, H., Kim, I. W., Evans, J. S., Tamerler, C, and Sarikaya, M., "Regulation of in vitro calcium phosphate mineralization by combinatorially selected hydroxyapatite-binding peptides," Biomacromolecules, 9(3), 966-973 (2008).
28. Sanghvi, A. B., Miller, K. P. H., Belcher, A. M., and Schmidt, C. E., "Biomaterials functionalization using a novel peptide that selectively binds to a conducting polymer," Nat Mater, 4(6), 496-502 (2005).
29. Nygaard, S., Wendelbo, R., and Brown, S., "Surface-specific zeolite-binding proteins," Adv Mater, 14(24), 1853-1856 (2002).
30. Wang, S. Q., Humphreys, E. S., Chung, S. Y., Delduco, D. F., Lustig, S. R., Wang, H., Parker, K. N., Rizzo, N. W., Subramoney, S., Chiang, Y. M., and Jagota, A., "Peptides with selective affinity for carbon nanotubes," Nat Mater, 2(3), 196-200 (2003).
31. Oren, E. E., Tamerler, C, and Sarikaya, M., "Metal recognition of septapeptides via polypod molecular architecture," Nano letters, 5(3), 415-9 (2005).
32. Heinz, H., Farmer, B. L., Pandey, R. B., Slocik, J. M., Patnaik, S. S., Pachter, R., and Naik, R. R., "Nature of molecular interactions of peptides with gold, palladium, and Pd-Au bimetal surfaces in aqueous solution," Journal of the American Chemical Society, 131(28), 9704-14 (2009).
33. Monti, S., Carravetta, V., Battocchio, C, Iucci, G., and Polzonetti, G., "Peptide/TiO2 surface interaction: A theoretical and experimental study on the structure of adsorbed ALA-GLU and ALA-LYS," Langmuir, 24(7), 3205-3214 (2008).
34. Dauber-Osguthorpe, P., Roberts, V. A., Osguthorpe, D. J., Wolff, J., Genest, M., and Hagler, A. T., "Structure and energetics of ligand binding to proteins: Escherichia coli dihydrofolate reductase-trimethoprim, a drug-receptor system," Proteins, 4(1), 31-47 (1988).
35. Perdew, J. P., Burke, K., and Ernzerhof, M., "Generalized gradient approximation made simple," Phys Rev Lett 77(18), 3865-3868 (1996).
36. Kolb, G., and Boiziau, C, "Selection by phage display of peptides targeting the HIV-1 TAR element," RNA biology, 2(1), 28-33 (2005).
37. Arnaiz, B., Madrigal-Estebas, L., Todryk, S., James, T. C, Doherty, D. G., and Bond, U., "A novel method to identify and characterise peptide mimotopes of heat shock protein 70-associated antigens," Journal of immune based therapies and vaccines, 4, 2 (2006).
38. Hou, S. T., Dove, M., Anderson, E., Zhang, J., and MacKenzie, C. R., "Identification of polypeptides with selective affinity to intact mouse cerebellar granule neurons from a random peptide-presenting phage library," Journal of neuroscience methods, 138(1-2), 39-44 (2004).
39. Tamerler, C, and Sarikaya, M., "Molecular biomimetics: utilizing nature's molecular ways in practical engineering," Acta Biomater, 3(3), 289-99 (2007).
40. Wiesehan, K., Buder, K., Linke, R. P., Patt, S., Stoldt, M., Unger, E., Schmitt, B., Bucci, E., and Willbold, D., "Selection of D-amino-acid peptides that bind to Alzheimer's disease amyloid peptide abetal-42 by mirror image phage display," Chembiochem: a European journal of chemical biology, 4(8), 748-53 (2003).
41. Estephan, E., Dao, J., Saab, M. B., Panayotov, I., Martin, M., Larroque, C, Gergely, C, Cuisinier, F. J. G., and Levallois, B., "SVSVGMKPSPRP: a broad range adhesion peptide," Biomed Eng-Biomed Te, 57(6), 481-489 (2012).
42. O'Mara, W. C, Herring, R. B., and Hunt, L. P., [Handbook of semiconductor silicon technology] Crest Publishing House, New Delhi(2005).
43. Tamerler, C, and Sarikaya, M., "Molecular biomimetics: utilizing nature's molecular ways in practical engineering," Acta biomaterialia 3(3), 289-99 (2007).