A fiber-optic DNA biosensor microarray for the analysis of gene expression

Nature Biotechnology

Volumn 14, Issue 13, 1996, Pages 1681-1684

  Ferguson, Jane A ^a   Boles, T Christian ^b   Adams, Christopher P ^b   Walt, David R ^a  

^a TUFTS UNIVERSITY   (United States)

^b Mosaic Technologies   (United States)

Author keywords

Array sensors; Fiber optics; Fluorescence; Oligonucleotides

Indexed keywords

DNA; OLIGONUCLEOTIDE;

ARTICLE; BIOSENSOR; DNA HYBRIDIZATION; DNA PROBE; DNA SEQUENCE; FIBEROSCOPE; GENE EXPRESSION; PRIORITY JOURNAL;

BIOSENSING TECHNIQUES; DNA PRIMERS; FIBER OPTICS; GENE EXPRESSION; IN SITU HYBRIDIZATION, FLUORESCENCE; OLIGONUCLEOTIDE PROBES; POLYMERASE CHAIN REACTION;

EID: 0029829687     PISSN: 10870156     EISSN: 15461696     Source Type: Journal    
DOI: 10.1038/nbt1296-1681     Document Type: Article

References (40)

1. Southern, E.M. 1996. DNA chips: analysing sequence by hybridization to oligonucleotides on a large scale. Trends in Genetics 12:110-115.
2. Beattie, K.L., Beattie, W.G., Meng, L, Turner, S.L, Coral-Vazquez, R., et al. 1995. Advances in genosensor research. Molecular Pathology 41:700-706.
3. Schena, M., Shalon, D., Davis, R.W., and Brown, P.O. 1995. Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science 270:467-468.
4. Stimpson, D.I., Hoijer, J.V., Hsieh, W., Jou, C, Gordon, J., Theriault, T., et al. 1995. Real-time detection of DNA hybridization and melting on oligonucleotide arrays by using optical wave guides. Proc. Natl. Acad. Sci. USA 92:6379-6383.
5. Pease, A.C., Solas, D., Sullivan, E.J., Cronin, M.T., Holmes, C.P., and Fodor, S.P.A. 1994. Light-generated oligonucleotide arrays for rapid DNA sequence analysis. Proc. Natl. Acad. Sci. USA 91:5022-5026.
6. Maskos, U. and Southern, E.M. 1992. Oligonucleotide hybridizations on glass supports: a novel linker for oligonucleotide synthesis and hybridization properties of oligonucleotides synthesised in situ. Nuc. Acids. Res. 20:1679-1684.
7. Guo, Z., Guifoyle, R.A., Thiel, A.J., Wang, R., and Smith, L.M. 1994. Direct fluorescence analysis of genetic polymorphisms by hybridization with oligonucleotide arrays on glass supports. Nuc. Acids. Res. 22:5456-5465.
8. Kolakowski, B., Battaglini, F., Lee, YS., Klironomos, G., and Mikkelsen, S.R. 1996. Comparison of an intercalating dye and an intercalant-enzyme conjugate for DNA detection in a microtiter-based assay. Anal. Chem. 68:1197-1200.
9. Nikiforov, TT, Rendle, R.B., Goeiet, P., Rogers, Y, Kotewicz, M.L., Anderson, S., et al. 1994. Genetic bit analysis: a solid phase method for typing single nucleotide polymorphisms. Nucleic Acids Res. 22:4167-4175.
10. Zammatteo, N., Girardeaux, C, Delforge, D., Pireaux, J., Remade, J. 1996. Amination of polystyrene microwells: application to the covalent grafting of DNA probes for hybridization assays. Anal. Biochem. 236:85-94.
11. Rasmussen, S.R., Larsen, M.R., and Rasmussen, S E. 1991. Covalent immobilization of DNA onto polystyrene microwells: the molecules are only bound at the 5′ end. Anal. Biochem. 198:138-142.
12. Matson, R.S., Rampal, J., Pentoney, S.L., Anderson, P.D., and Coassin, P. 1995. Biopolymer synthesis on polypropylene supports: oligonucleotide arrays. Anal. Biochem. 224:110-116.
13. Khrapko, K.R., Lysov, Y.P., Ivanov, I.B., Yershov, G.M., Vasilenko, S.K., Ftorentiev, V.L., et al. 1991. A method for DNA sequencing by hybridization with oligonucleotide matrix. J. DNA Seq. Map. 1:375-388.
14. Eggers, M., Hogan, M., Reich, R.K., Lamture, J., Ehrlich, D., Hollis, M., et al. 1994. A microchip for quantitative detection of molecules utilizing luminescent and radioisotope reporter groups. BioTechniques 17:516-524.
15. Kreiner, T. 1996. Rapid genetic sequence analysis using a DNA probe array system. Am. Lab. vol:39-43.
16. Kumke, M.U., Li, G., McGowan, LB., Walker, G.T., and Linn, CP. 1995. Hybridization of fluorescein-labeled DNA oligomers detected by fluorescence anisotropy with protein binding enhancement. Anal. Chem. 67:3945-3951.
17. Piunno, P.A.E., Krull, U.J., Hudson, R.H.E., Damha, M.J., and Cohen, H. 1994. Fiber optic biosensor for fluorimetrie detection of DNA hybridization. Anal. Chim. Acta 288:205-214.
18. Ito, T., Suzuki, T., Lim, D.K., Wellman, S.E., and Ho, I.K. 1995. A novel quantitative receptor autoradiography and in situ hybridization histochemistry technique using storage phosphor screen imaging. J. Neurosci. Methods 59:265-271.
19. Nguyen, Q., and Heffelfinger, D.M. 1995. Imaging and quantitation of chemilu-minescence using photoexcitable storage phosphor screen. Anal. Biochem. 226:59-67.
20. Graham, CR., Leslie, D., and Squirrell, D.J. 1992. Gene probe assays on a fibre-optic evanescent wave biosensor. Biosen. Bioelectron. 7:487-493.
21. Strachan, N.J.C, and Gray, D.I. 1995. A rapid general method for the identification of PCR products using a fibre-optic biosensor and its application to the detection of Listeria. Lett. App. Microbiol. 21:5-9.
22. Watts, H.J., Yeung, D., and Parkes, H. 1995. Real-time detection and quantification of DNA hybridization by an optical biosensor. Anal. Chem. 67:4283-4289.
23. Fodor, S.P.A., Rava, R.P., Huang, X.C., Pease, A.C., Holmes, CP., and Adams, C.L. 1993. Multiplexed biochemical assays with biological chips. Nature 364:555-556.
24. Millan, K.M., Saraullo, A., and Mikkelsen, S.R. 1994. Voltammetric DNA biosensor for cystic fibrosis based on a modified carbon paste electrode. Anal. Chem. 66:2943-2948.
25. Pandey, P.C. and Weetall, H.H. 1994. Application of photochemical reaction in electrochemical detection of DNA intercalation. Anal. Chem. 66:1236-1241.
26. Hashimoto, K., Ito, K., and Ishimori, Y. 1994. Novel DNA sensor for electrochemical gene detection. Anal. Chim. Acta 286:219-224.
27. Yamaguchi, S. and Shimomura, T. 1993. Adsorption, immobilization, and hybridization of DNA studied by the use of quartz crystal oscillators. Anal. Chem. 65:1925-1927.
28. Tombline, G., Bellizzi, D., and Sgaramella, V. 1996. Heterogeneity of primer extension products in asymmetric PCR is due both to cleavage by a structure-specific exo/endonuclease activity of DNA polymerases and to premature stops. Biochem. 93:2724-2728.
29. Saiki, R.K., Walsh, P.S., Levensen, CH., and Erlich, H.A. 1989. Genetic analysis of amplified DNA with immobilized sequence-specific oligonucleotide probes. Proc. Natl. Acad. Sci. USA 86:6230-6234.
30. Bronk, K.S., Michael, K.L, Pantano, P., and Walt, D.R. 1995. Combined imaging and chemical sensing using a single optical imaging fiber. Anal. Chem. 67:2750-2757.
31. Van Ness, J., Kalbfleisch, S., Petrie, CR., Reed, M.W., Tabone, J.C., and Vermeulen, N.M.J. 1991. A versatile solid support system for oligodeoxy-nucleotide probe-based hybridization assays. Nucleic Acids Res. 19:3345-3350.
32. Munkholm, C, Walt, D.R., Milanovich, F.P., and Klainer, S.M. 1986. Polymer modification of fiber optic chemical sensors as a method of enhancing fluorescence signal for pH measurement. Anal. Chem. 58:1427-1430.
33. Walt, D.R. and Agayn, V.I. 1994. The chemistry of enzyme and protein immobilization with gluteraldehyde. Trends Anal. Chem. 13:425-430.
34. Kulp, T.J., Camins, I., Angel, S.M., Munkholm, C, and Walt, D.R. 1987. Polymer immobilized enzyme optrodes for the detection of penicillin. Anal. Chem. 59:2849-2853.
35. Menger, F.M., Eliseev, A.V., and Migulin, V.A. 1995. Phosphatase catalysis developed via combinatorial organic chemistry. J. Org. Chem. 60:6666-6667.
36. Suh, J., Cho, Y, and Lee, K.J. 1991. Macrocyclic metal complexes built on poly-ethylenimine. J. Am. Chem. Soc. 113:4198-4202.
37. Egger, D., Pasamontes, L, Ostermayer, M., and Bienz, K. 1995. Reverse transcription multiplex PCR for differentiation between polio and enteroviruses from clinical and environmental samples. J. Clin. Microbiol. 33:1442.
38. Cronin, M.T., Fucini, R.V., Kim, S.M., Masino, R.S., Wespi, R.M., and Miyada, C.G. 1996. Cystic fibrosis mutation detection by hybridization to light-generated DNA probe arrays. Human Mutation 7:244-255.
39. Tyagi, S. and Kramer, F.R. 1996. Molecular beacons: probes that fluoresce upon hybridization. Nature Biotechnology 14:303-308.
40. Yokota, T., Otsuka, T., Mosmann, T, Banchereau, J., DeFrance, T., Blanchard, D., et al. 1986. isolation and characterization of a human interleukin cDNA clone, homologous to mouse B-cell stimulatory factor 1, that expresses B-cell- and T-cell-stimulating activities. Proc. Natl. Acad. Sci. USA 83:5894-5898.