Selective aluminum passivation for targeted immobilization of single DNA polymerase molecules in zero-mode waveguide nanostructures

Proceedings of the National Academy of Sciences of the United States of America

Volumn 105, Issue 4, 2008, Pages 1176-1181

  Korlach, Jonas ^a   Marks, Patrick J ^a   Cicero, Ronald L ^a   Gray, Jeremy J ^a   Murphy, Devon L ^a   Roitman, Daniel B ^a   Pham, Thang T ^a   Otto, Geoff A ^a   Foquet, Mathieu ^a   Turner, Stephen W ^a  

^a PACIFIC BIOSCIENCES   (United States)

Author keywords

Fluorescence; Metal passivation; Microscopy; Polyvinyl phosphonic acid; Single molecule

Indexed keywords

ALUMINUM; BASE; DNA; DNA POLYMERASE; GLASS; NANOMATERIAL; SILICON DIOXIDE; CIRCULAR DNA; DNA DIRECTED RNA POLYMERASE; IMMOBILIZED ENZYME; PHOSPHONIC ACID DERIVATIVE; POLYVINYL DERIVATIVE;

CONFERENCE PAPER; DENSITY; DNA SEQUENCE; DNA SYNTHESIS; ENZYME IMMOBILIZATION; PRIORITY JOURNAL; PROTEIN TARGETING; SEQUENCE ANALYSIS; SURFACE PROPERTY; ARTICLE; CHEMISTRY; COMPARATIVE STUDY; DNA TEMPLATE; FLUORESCENCE MICROSCOPY; INSTRUMENTATION; ISOLATION AND PURIFICATION; METHODOLOGY; OPTICS; PROTEIN MICROARRAY;

ALUMINUM; DNA, CIRCULAR; DNA-DIRECTED RNA POLYMERASES; ENZYMES, IMMOBILIZED; GLASS; MICROSCOPY, FLUORESCENCE; NANOSTRUCTURES; OPTICS; PHOSPHONIC ACIDS; POLYVINYLS; PROTEIN ARRAY ANALYSIS; SURFACE PROPERTIES; TEMPLATES, GENETIC;

EID: 39549114616     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.0710982105     Document Type: Article

References (36)

1. Craighead H (2006) Future lab-on-a-chip technologies for interrogating individual molecules. Nature 442:387-393.
2. Mannion JT, Craighead HG (2007) Nanofluidic structures for single biomolecule fluorescent detection. Biopolymers 85:131-143.
3. Levene MJ, et al. (2003) Zero-mode waveguides for single-molecule analysis at high concentrations. Science 299:682-686.
4. Samiee KT, Foquet M, Guo L, Cox EC, Craighead HG (2005) Lambda-repressor oligomerization kinetics at high concentrations using fluorescence correlation spectroscopy in zero-mode waveguides. Biophys J 88:2145-2153.
5. Wenger J, et al. (2006) Dual-color fluorescence cross-correlation spectroscopy in a single nanoaperture: Towards rapid multicomponent screening at high concentrations. Optics Express 14:12206-12216.
6. Edel JB, Wu M, Baird B, Craighead HG (2005) High spatial resolution observation of single-molecule dynamics in living cell membranes. Biophys J 88:L43-L45.
7. Samiee KT, Moran-Mirabal JM, Cheung YK, Craighead HG (2006) Zero-mode waveguides for single-molecule spectroscopy on lipid membranes. Biophys J 90:3288-3299.
8. Wenger J, et al. (2007) Diffusion analysis within single nanometric apertures reveals the ultrafine cell membrane organization. Biophys J 92:913-919.
9. Moran-Mirabal JM, Torres AJ, Samiee KT, Baird BA, Craighead HG (2007) Cell investigation of nanostructures: Zero-mode waveguides for plasma membrane studies with single molecule resolution. Nanotechnology 18:195101-195607.
10. Wenger J, Rigneault H, Dintinger J, Marguet D, Lenne PF (2006) Single-fluorophore diffusion in a lipid membrane over a subwavelength aperture. J Biol Phys 32:SN1-SN4.
11. Danelon C, Perez JB, Santschi C, Brugger J, Vogel H (2006) Cell membranes suspended across nanoaperture arrays. Langmuir 22:22-25.
12. Fore S, Yuen Y, Hesselink L, Huser T (2007) Pulsed-interleaved excitation FRET measurements on single duplex DNA molecules inside C-shaped nanoapertures. Nano Lett 7:1749-1756.
13. Love JC, Estroff LA, Kriebel JK, Nuzzo RG, Whitesides GM (2005) Self-assembled monolayers of thiolates on metals as a form of nanotechnology. Chem Rev 105:1103-1169.
14. Herrwerth S, Eck W, Reinhardt S, Grunze M (2003) Factors that determine the protein resistance of oligoether self-assembled monolayers-internal hydrophilicity, terminal hydrophilicity, and lateral packing density. J Am Chem Soc 125:9359-9366.
15. Bruckbauer A, et al. (2004) An addressable antibody nanoarray produced on a nanostructured surface. J Am Chem Soc 126:6508-6509.
16. Gardner TJ, Frisbie CD, Wrighton MS (1995) Systems for orthogonal self-assembly of electroactive monolayers on Au and Ito-an approach to molecular electronics. J Am Chem Soc 117:6927-6933.
17. Liu Y, Bishop J, Williams L, Blair S, Herron J (2004) Biosensing based upon molecular confinement in metallic nanocavity arrays. Nanotechnology 15:1368-1374.
18. Xia YN, Whitesides GM (1996) Shadowed sputtering of gold on V-shaped microtrenches etched in silicon and applications in microfabrication. Adv Mat 8:765-768.
19. Vargel C (2004) Corrosion of Aluminium (Elsevier, Amsterdam).
20. Michel R, et al. (2002) A novel approach to produce biologically relevant chemical patterns at the nanometer scale: Selective molecular assembly patterning combined with colloidal lithography. Langmuir 18:8580-8586.
21. Michel R, et al. (2002) Selective molecular assembly patterning: A new approach to micro- and nanochemical patterning of surfaces for biological applications. Langmuir 18:3281-3287.
22. 2 supports with phosphonic acids. Chem Mater 16:5670-5675.
23. Ramsier RD, Henriksen PN, Gent AN (1988) Adsorption of phosphorus-acids on alumina. Surf Sci 203:72-88.
24. Goetting LB, Deng T, Whitesides GM (1999) Microcontact printing of alkanephosphonic acids on aluminum: Pattern transfer by wet chemical etching. Langmuir 15:1182-1191.
25. Aslan K, et al. (2005) Metal-enhanced fluorescence: An emerging tool in biotechnology. Curr Opin Biotechnol 16:55-62.
26. Hellen EH, Axelrod D (1987) Fluorescence emission at dielectric and metal-film interfaces. J Opt Soc Am B 4:337-350.
27. Akerman B, Tuite E (1996) Single- and double-strand photocleavage of DNA by YO, YOYO and TOTO. Nucleic Acids Res 24:1080-1090.
28. Krieg A, Ruckstuhl T, Seeger S (2006) Towards single-molecule DNA sequencing: Assays with low nonspecific adsorption. Anal Biochem 349:181-185.
29. Mutin PH, Guerrero G, Vioux A (2005) Hybrid materials from organophosphorus coupling molecules. J Mat Chem 15:3761-3768.
30. Gao W, Dickinson L, Grozinger C, Morin FG, Reven L (1996) Self-assembled monolayers of alkylphosphonic acids on metal oxides. Langmuir 12:6429-6435.
31. Gawalt ES, Avaltroni MJ, Koch N, Schwartz J (2001) Self-assembly and bonding of alkanephosphonic acids on the native oxide surface of titanium. Langmuir 17:5736-5738.
32. Allara DL, Nuzzo RG (1985) Spontaneously organized molecular assemblies. 1. Formation, dynamics, and physical-properties of normal-alkanoic acids adsorbed from solution on an oxidized aluminum surface. Langmuir 1:45-52.
33. Spori DM, et al. (2007) Influence of alkyl chain length on phosphate self-assembled monolayers. Langmuir 23:8053-8060.
34. Gnauck M, et al. (2007) Carboxy-terminated oligo(ethylene glycol)-alkane phosphate: Synthesis and self-assembly on titanium oxide surfaces. Langmuir 23:377-381.
35. Zoulalian V, et al. (2006) Functionalization of titanium oxide surfaces by means of poly(alkyl-phosphonates). J Phys Chem B 110:25603-25605.
36. Blanco L, et al. (1989) Highly efficient DNA synthesis by the phage phi 29 DNA polymerase. Symmetrical mode of DNA replication. J Biol Chem 264:8935-8940.