A real-time PCR-based method for determining the surface coverage of thiol-capped oligonucleotides bound onto gold nanoparticles

Nucleic Acids Research

Volumn 34, Issue 7, 2006, Pages

  Kim, Eun Young ^a,b   Stanton, Jennifer ^a   Vega, Rafael A ^b,c   Kunstman, Kevin J ^a   Mirkin, Chad A ^b,c   Wolinsky, Steven M ^a,b  

^a NORTHWESTERN UNIVERSITY   (United States)

^b NORTHWESTERN UNIVERSITY   (United States)

^c NORTHWESTERN UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

GOLD; NANOPARTICLE; PLANT DNA; POLYCLONAL ANTIBODY; PRIMER DNA; THIOL DERIVATIVE; DNA; FLUORESCENT DYE; NANOMATERIAL; NUCLEOTIDE;

3' UNTRANSLATED REGION; 5' UNTRANSLATED REGION; ACCURACY; ARABIDOPSIS; ARTICLE; BINDING SITE; CONTROLLED STUDY; DISSOCIATION; DNA DETERMINATION; DNA PROBE; DNA SEQUENCE; FLUORESCENCE ANALYSIS; GENE AMPLIFICATION; MOLECULAR INTERACTION; NONHUMAN; PRIORITY JOURNAL; PROCESS OPTIMIZATION; QUANTITATIVE ANALYSIS; REAL TIME POLYMERASE CHAIN REACTION; SENSITIVITY ANALYSIS; SURFACE PROPERTY; THERMOSTABILITY; CHEMISTRY; EVALUATION; METHODOLOGY; OLIGONUCLEOTIDE PROBE; POLYMERASE CHAIN REACTION; TEMPERATURE; TIME;

DNA; FLUORESCENT DYES; GOLD; NANOSTRUCTURES; OLIGONUCLEOTIDE PROBES; POLYMERASE CHAIN REACTION; TEMPERATURE; THIONUCLEOTIDES; TIME FACTORS;

EID: 33645933271     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkl147     Document Type: Article

References (23)

1. Demers,L.M., Mirkin,C.A., Mucic,R.C., Reynolds,R.A.III, Letsinger,R.L., Elghanian,R. and Viswanadham,G. (2000) A fluorescence-based method for determining the surface coverage and hybridization efficiency of thiol-capped oligonucleotides bound to gold thin films and nanoparticles. Anal. Chem., 72, 5535-5541.
2. Festag,G., Steinbruck,A., Wolff,A., Csaki,A., Moller,R. and Fritzsche,W. (2005) Optimization of gold nanoparticle-based DNA detection for microarrays. J. Fluoresc., 15, 161-170.
3. Liang,R.Q., Li,W., Li,Y., Tan,C.Y., Li,J.X., Jin,Y.X. and Ruan,K.C. (2005) An oligonucleotide microarray for microRNA expression analysis based on labeling RNA with quantum dot and nanogold probe. Nucleic Acids Res., 33, e17.
4. Sato,K., Hosokawa,K. and Maeda,M. (2005) Non-cross-linking gold nanoparticle aggregation as a detection method for single-base substitutions. Nucleic Acids Res., 33, e4.
5. Huber,M., Wei,T.F., Muller,U.R., Lefebvre,P.A., Marla,S.S. and Bao,Y.P. (2004) Gold nanoparticle probe-based gene expression analysis with unamplified total human RNA. Nucleic Acids Res., 32, e137.
6. Nicewarner Pena,S.R., Raina,S., Goodrich,G.P., Fedoroff,N.V. and Keating,C.D. (2002) Hybridization and enzymatic extension of au nanoparticle-bound oligonucleotides. J. Am. Chem. Soc., 124, 7314-7323.
7. Daniel,M.C. and Astruc,D. (2004) Gold nanoparticles: Assembly, supramolecular chemistry, quantum-size-related properties, and applications toward biology, catalysis, and nanotechnology. Chem Rev., 104, 293-346.
8. Foultier,B., Moreno-Hagelsieb,L., Flandre,D. and Remacle,J. (2005) Comparison of DNA detection methods using nanoparticles and silver enhancement. IEE Proceedings-Nanobiotechnology, 152, 3-12.
9. Park,S.J., Lazarides,A.A., Mirkin,C.A., Brazis,P.W., Kannewurf,C.R. and Letsinger,R.L. (2000) The electrical properties of gold nanoparticle assemblies linked by DNA. Angewandte Chemie., 39, 3845-3848.
10. Patolsky,F., Weizmann,Y., Lioubashevski,O. and Willner,I. (2002) Au-nanoparticle nanowires based on DNA and polylysine templates. Angew Chem. Int. Ed. Engl., 41, 2323-2327.
11. Moller,R., Csaki,A., Kohler,J.M. and Fritzsche,W. (2000) DNAprobes on chip surfaces studied by scanning force microscopy using specific binding of colloidal gold. Nucleic Acids Res., 28, E91.
12. Mirkin,C.A., Letsinger,R.L., Mucic,R.C. and Storhoff,J.J. (1996) A DNA-based method for rationally assembling nanoparticles into macroscopic materials. Nature, 382, 607-609.
13. Kohli,P., Harrell,C.C., Cao,Z., Gasparac,R., Tan,W. and Martin,C.R. (2004) DNA-functionalized nanotube membranes with single-base mismatch selectivity. Science, 305, 984-986.
14. Steel,A.B., Herne,T.M. and Tarlov,M.J. (1998) Electrochemical quantitation of DNA immobilized on gold. Anal. Chem., 70, 4670-4677.
15. Peterlinz,K.A., Georgiadis,R.M., Herne,T.M. and Tarlov,M.J. (1997) Observation of hybridization and dehybridization of thiol-tethered DNA using two-color surface plasmon resonance spectroscopy. J. Am. Chem. Soc., 119, 3401-3402.
16. Dubertret,B., Calame,M. and Libchaber,A.J. (2001) Single-mismatch detection using gold-quenched fluorescent oligonucleotides. Nat. Biotechnol., 19, 365-370.
17. Storhoff,J.J., Elghanian,R., Mirkin,C.A. and Letsinger,R.L. (2002) Sequence-dependent stability of DNA-modified gold nanoparticles. Langmuir, 18, 6666-6670.
18. Grabar,K.C., Freeman,G.R., Hommer,M.B. and Natan,M.J. (1995) Preparation and characterization of Au colloid monolayers. Anal. Chem., 67, 735-743.
19. Jin,R., Wu,G., Li,Z., Mirkin,C.A. and Schatz,G.C. (2003) What controls the melting properties of DNA-linked gold nanoparticle assemblies? J. Am. Chem. Soc., 125, 1643-1654.
20. Li,Z., Jin,R., Mirkin,C.A. and Letsinger,R.L. (2002) Multiple thiol-anchor capped DNA-gold nanoparticle conjugates. Nucleic Acids Res., 30, 1558-1562.
21. Nam,J.M., Thaxton,C.S. and Mirkin,C.A. (2003) Nanoparticle-based bio-bar codes for the ultrasensitive detection of proteins. Science, 301, 1884-1886.
22. Chowdhury,M.H., Julian,A.M., Coates,C.J. and Cote,G.L. (2004) Detection of differences in oligonucleotide-influenced aggregation of colloidal gold nanoparticles using absorption spectroscopy. J. Biomed. Opt., 9, 1347-1357.
23. Kutyavin,I.V., Afonina,I.A., Mills,A., Gorn,V.V., Lukhtanov,E.A., Belousov,E.S., Singer,M.J., Walburger,D.K., Lokhov,S.G., Gall,A.A. et al. (2000) 3′-minor groove binder-DNA probes increase sequence specificity at PCR extension temperatures. Nucleic Acids Res., 28, 655-661.