Considerations of solid-phase DNA amplification

Bioconjugate Chemistry

Volumn 21, Issue 4, 2010, Pages 690-695

  Palanisamy, Ramkumar ^a   Connolly, Ashley R ^a   Trau, Matt ^a  

^a UNIVERSITY OF QUEENSLAND   (Australia)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; DNA SEQUENCES; GENE ENCODING;

AMPLICONS; DNA AMPLIFICATION; DNA SEQUENCING; HIGH-THROUGHPUT; REACTION PROCESS; SOLID PHASIS; SOLID-PHASE; THEORETICAL FRAMEWORK;

POLYMERASE CHAIN REACTION;

DNA;

AMPLICON; ARTICLE; CONCEPTUAL FRAMEWORK; DNA SEQUENCE; IMMOBILIZATION; POLYMERASE CHAIN REACTION; SINGLE NUCLEOTIDE POLYMORPHISM; SOLID PHASE POLYMERASE CHAIN REACTION;

EID: 77951262614     PISSN: 10431802     EISSN: 15204812     Source Type: Journal    
DOI: 10.1021/bc900491s     Document Type: Article

References (28)

1. Mullis, K., Faloona, F., Scharf, S., Saiki, R., Horn, G., and Erlich, H. (1986) Specific enzymatic amplification of DNA in vitro: the polymerase chain reaction Cold Spring Harb. Symp. Quant. Biol. 51 Pt 1, 263-73
2. Saiki, R. K., Gelfand, D. H., Stoffel, S., Scharf, S. J., Higuchi, R., Horn, G. T., Mullis, K. B., and Erlich, H. A. (1988) Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase Science 239, 487-91
3. Diehl, F., Li, M., He, Y., Kinzler, K. W., Vogelstein, B., and Dressman, D. (2006) BEAMing: single-molecule PCR on microparticles in water-in-oil emulsions Nat. Methods 3, 551-9
4. Nakano, M., Nakai, N., Kurita, H., Komatsu, J., Takashima, K., Katsura, S., and Mizuno, A. (2005) Single-molecule reverse transcription polymerase chain reaction using water-in-oil emulsion J. Biosci. Bioeng. 99, 293-5
5. Kojima, T., Takei, Y., Ohtsuka, M., Kawarasaki, Y., Yamane, T., and Nakano, H. (2005) PCR amplification from single DNA molecules on magnetic beads in emulsion: application for high-throughput screening of transcription factor targets Nucleic Acids Res. 33 e150
6. Adessi, C., Matton, G., Ayala, G., Turcatti, G., Mermod, J. J., Mayer, P., and Kawashima, E. (2000) Solid phase DNA amplification: characterisation of primer attachment and amplification mechanisms Nucleic Acids Res. 28 E87
7. Shapero, M. H., Leuther, K. K., Nguyen, A., Scott, M., and Jones, K. W. (2001) SNP genotyping by multiplexed solid-phase amplification and fluorescent minisequencing Genome Res. 11, 1926-34
8. Niemeyer, C. M., Adler, M., and Wacker, R. (2007) Detecting antigens by quantitative immuno-PCR Nat. Protoc. 2, 1918-30
9. Sjoroos, M., Ilonen, J., and Lovgren, T. (2001) Solid-phase PCR with hybridization and time-resolved fluorometry for detection of HLA-B27 Clin. Chem. 47, 498-504
10. Kim, J. H., Hong, J. A., Yoon, M., Yoon, M. Y., Jeong, H. S., and Hwang, H. J. (2002) Solid-phase genetic engineering with DNA immobilized on a gold surface J. Biotechnol. 96, 213-21
11. Levesque, G., Bharucha, A. D., and Murthy, M. R. (1993) Reverse transcription and PCR amplification of rare mRNAs immobilized on oligo(dT) cellulose Anal. Biochem. 213, 170-1
12. von Nickisch-Rosenegk, M., Marschan, X., Andresen, D., and Bier, F. F. (2008) Reverse transcription-polymerase chain reaction on a microarray: the integrating concept of active arrays Anal. Bioanal. Chem. 391, 1671-8
13. Brenner, S., Williams, S. R., Vermaas, E. H., Storck, T., Moon, K., McCollum, C., Mao, J. I., Luo, S., Kirchner, J. J., Eletr, S., DuBridge, R. B., Burcham, T., and Albrecht, G. (2000) In vitro cloning of complex mixtures of DNA on microbeads: physical separation of differentially expressed cDNAs Proc. Natl. Acad. Sci. U.S.A. 97, 1665-70
14. Shendure, J., Porreca, G. J., Reppas, N. B., Lin, X., McCutcheon, J. P., Rosenbaum, A. M., Wang, M. D., Zhang, K., Mitra, R. D., and Church, G. M. (2005) Accurate multiplex polony sequencing of an evolved bacterial genome Science 309, 1728-32
15. Carmon, A., Vision, T. J., Mitchell, S. E., Thannhauser, T. W., Muller, U., and Kresovich, S. (2002) Solid-phase PCR in microwells: effects of linker length and composition on tethering, hybridization, and extension Biotechniques 32, 410-412 414-8, 420
16. Shchepinov, M. S., Case-Green, S. C., and Southern, E. M. (1997) Steric factors influencing hybridisation of nucleic acids to oligonucleotide arrays Nucleic Acids Res. 25, 1155-61
17. Miller, C. R., Vogel, R., Surawski, P. P., Jack, K. S., Corrie, S. R., and Trau, M. (2005) Functionalized organosilica microspheres via a novel emulsion-based route Langmuir 21, 9733-40
18. Corrie, S. R., Lawrie, G. A., and Trau, M. (2006) Quantitative analysis and characterization of biofunctionalized fluorescent silica particles Langmuir 22, 2731-7
19. Wilson, W. J., Erler, A. M., Nasarabadi, S. L., Skowronski, E. W., and Imbro, P. M. (2005) A multiplexed PCR-coupled liquid bead array for the simultaneous detection of four biothreat agents Mol. Cell Probes 19, 137-44
20. Kalogianni, D. P., Elenis, D. S., Christopoulos, T. K., and Ioannou, P. C. (2007) Multiplex quantitative competitive polymerase chain reaction based on a multianalyte hybridization assay performed on spectrally encoded microspheres Anal. Chem. 79, 6655-61
21. Song, L., Ahn, S., and Walt, D. R. (2006) Fiber-optic microsphere-based arrays for multiplexed biological warfare agent detection Anal. Chem. 78, 1023-33
22. Li, S., Liu, H., Wang, Z., Hou, P., Guo, Y., He, Q., and He, N. (2006) Magnetic-particles-based high-throughput genotyping method with dual-color fluorescence hybridization Anal. Biochem. 359, 277-9
23. Raeymaekers, L. (1993) Quantitative PCR: theoretical considerations with practical implications Anal. Biochem. 214, 582-5
24. Chatelier, R. C. and Ashcroft, R. G. (1987) Calibration of flow cytometric fluorescence standards using the isoparametric analysis of ligand binding Cytometry 8, 632-6
25. Andreadis, J. D. and Chrisey, L. A. (2000) Use of immobilized PCR primers to generate covalently immobilized DNAs for in vitro transcription/translation reactions Nucleic Acids Res. 28 e5
26. Guo, Z., Guilfoyle, 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 Nucleic Acids Res. 22, 5456-65
27. Connolly, A. R., Cleland, L. G., and Kirkham, B. W. (1995) Mathematical considerations of competitive polymerase chain reaction J. Immunol. Methods 187, 201-11
28. Tiemann-Boege, I., Curtis, C., Shinde, D. N., Goodman, D. B., Tavare, S., and Arnheim, N. (2009) Product length, dye choice, and detection chemistry in the bead-emulsion amplification of millions of single DNA molecules in parallel Anal. Chem. 81, 5770-6