Rapid, cost-effective DNA quantification via a visually-detectable aggregation of superparamagnetic silica-magnetite nanoparticles

Nano Research

Volumn 7, Issue 5, 2014, Pages 755-764

  Liu, Qian ^a   Li, Jingyi ^a   Liu, Hongxue ^c   Tora, Ibrahim ^a   Ide, Matthew S ^c   Lu, Jiwei ^c   Davis, Robert J ^c   Green, David L ^c   Landers, James P ^a,b,c  

^a UNIVERSITY OF VIRGINIA   (United States)

^b UNIVERSITY OF VIRGINIA HEALTH SYSTEM   (United States)

^c University of Virginia   (United States)

Author keywords

(PCR); core shell; DNA quantification; polymerase chain reaction; silica magnetite; superparamagnetic

Indexed keywords

EID: 84900553481     PISSN: 19980124     EISSN: 19980000     Source Type: Journal    
DOI: 10.1007/s12274-014-0436-9     Document Type: Article

References (39)

1. Penn, S. G.; He, L.; Natan, M. J. Nanoparticles for bioanalysis. Curr. Opin. Chem. Biol. 2003, 7, 609-615.
2. Pankhurst, Q. A.; Connolly, J.; Jones, S. K.; Dobson, J. Applications of magnetic nanoparticles in biomedicine. J. Phys. D: Appl. Phys. 2003, 36, R167-R181.
3. Willner, I.; Katz, E. Magnetic control of electrocatalytic and bioelectrocatalytic processes. Angew. Chem. Int. Ed. 2003, 42, 4576-4588.
4. Xu, C. J.; Xu, K. M.; Gu, H. W.; Zhong, X. F.; Guo, Z. H.; Zheng, R. K.; Zhang, X. X.; Xu, B. Nitrilotriacetic acid-modified magnetic nanoparticles as a general agent to bind histidine-tagged proteins. J. Am. Chem. Soc. 2004, 126, 3392-3393.
5. Perez, J. M.; O'Loughin, T.; Simeone, F. J.; Weissleder, R.; Josephson, L. DNA-based magnetic nanoparticle assembly acts as a magnetic relaxation nanoswitch allowing screening of DNA-cleaving agents. J. Am. Chem. Soc. 2002, 124, 2856-2857.
6. Laurent, S.; Forge, D.; Port, M.; Roch, A.; Robic, C.; Vander Elst, L.; Muller, R. N. Magnetic iron oxide nanoparticles: Synthesis, stabilization, vectorization, physicochemical characterizations, and biological applications. Chem. Rev. 2008, 108, 2064-2110.
7. Frey, N. A.; Peng, S.; Cheng, K.; Sun, S. H. Magnetic nanoparticles: Synthesis, functionalization, and applications in bioimaging and magnetic energy storage. Chem. Soc. Rev. 2009, 38, 2532-2542.
8. Huang, S.-H.; Juang, R.-S. Biochemical and biomedical applications of multifunctional magnetic nanoparticles: A review. J. Nanopart. Res. 2011, 13, 4411-4430.
9. Gupta, A. K.; Gupta, M. Synthesis and surface engineering of iron oxide nanoparticles for biomedical applications. Biomaterials2005, 26, 3995-4021.
10. Suh, S. K.; Yuet, K.; Hwang, D. K.; Bong, K. W.; Doyle, P. S.; Hatton, T. A. Synthesis of nonspherical superparamagnetic particles: In situ coprecipitation of magnetic nanoparticles in microgels prepared by stop-flow lithography. J. Am. Chem. Soc. 2012, 134, 7337-7343.
11. Drmota, A.; Drofenik, M.; Koselj, J.; Žnidaršič, A. Microemulsion method for synthesis of magnetic oxide nanoparticles. In Microemulsions-An Introduction to Properties and Applications. Najjar, R., Ed.; InTech: Croatia, 2012; pp 191-214.
12. Okoli, C.; Sanchez-Dominguez, M.; Boutonnet, M.; Järås, S.; Civera, C.; Solans, C.; Kuttuva, G. R. Comparison and functionalization study of microemulsion-prepared magnetic iron oxide nanoparticles. Langmuir2012, 28, 8479-8485.
13. Lee, J.; Lee, Y.; Youn, J. K.; Na, H. B.; Yu, T.; Kim, H.; Lee, S.-M.; Koo, Y.-M.; Kwak, J. H.; Park, H. G., et al. Simple synthesis of functionalized superparamagnetic magnetite/silic core/shell nanoparticles and their application as magnetically separable high-performance biocatalysts. Small2008, 4, 143-152.
14. Deng, H.; Li, X. L.; Peng, Q.; Wang, X.; Chen, J. P.; Li, Y. D. Monodisperse magnetic single-crystal ferrite microspheres. Angew. Chem. Int. Ed. 2005, 44, 2782-2785.
15. Cheng, C. M.; Wen, Y. H.; Xu, X. F.; Gu, H. C. Tunable synthesis of carboxyl-functionalized magnetite nanocrystal clusters with uniform size. J. Mater. Chem. 2009, 19, 8782-8788.
16. Ge, J. P.; Hu, Y. X.; Biasini, M.; Beyermann, W. P.; Yin, Y. D. Superparamagnetic magnetite colloidal nanocrystal clusters with uniform size. Angew. Chem. Int. Ed. 2007, 46, 4342-4345.
17. 4 nanoparticles. Cryst. Growth Des. 2005, 5, 391-393.
18. Wang, X.; Zhuang, J.; Peng, Q.; Li, Y. D. A general strategy for nanocrystal synthesis. Nature2005, 437, 121-124.
19. Jia, X.; Chen, D. R.; Jiao, X. L.; Zhai, S. M. Environmentally-friendly preparation of water-dispersible magnetite nanoparticles. Chem. Commun. 2009, 968-970.
20. Wang, J.; Yao, M.; Xu, G. J.; Cui, P.; Zhao, J. T. Synthesis of monodisperse nanocrystals of high crystallinity magnetite through solvothermal process. Mater. Chem. Phys. 2009, 113, 6-9.
21. Beaven, G. H.; Holiday, E. R.; Johnson, E. A. Optical properties of nucleic acids and their components. In The Nucleic Acids. Volume 1. Chargaff, E., Davidson, J. N., Eds.; New York: Academic Press, 1955; pp 493-553.
22. Ahn S. J.; Costa, J.; Emanuel J. R. PicoGreen quantitation of DNA: Effective evaluation of samples pre- or post-PCR. Nucl. Acids Res., 1996, 24, 2623-2625.
23. Sanchez J. L.; Storch, G. A. Multiplex, quantitative, real-time PCR assay for cytomegalovirus and human DNA. J. Clin. Microbiol. 2002, 40, 2381-2386.
24. Leslie, D. C.; Li, J. Y.; Strachan, B. C.; Begley, M. R.; Finkler, D.; Bazydlo, L. A.; Barker, N. S.; Haverstick, D. M.; Utz, M.; Landers, J. P. New detection modality for label-free quantification of DNA in biological samples via superparamagnetic bead aggregation. J. Am. Chem. Soc. 2012, 134, 5689-5696.
25. Li, J. Y.; Liu, Q.; Alsamarri, H.; Lounsbury, J. A.; Haversitick, D. M.; Landers, J. P. Label-free DNA quantification via a' pipette, aggregate and blot' (PAB) approach with magnetic silica particles on filter paper. Lab Chip2013, 13, 955-961.
26. Melzak, K. A.; Sherwood, C. S.; Turner, R. F. B.; Haynes, C. A. Driving forces for DNA adsorption to silica perchlorate solutions. J. Colloid. Interface Sci. 1996, 181, 635-644.
27. Luger, K.; Mäder, A. W.; Richmond, R. K.; Sargent, D. F.; Richmond, T. J. Crystal structure of the nucleosome core particle at 2. 8 Å resolution. Nature1997, 389, 251-260.
28. Rivetti, C.; Codeluppi, S. Accurate length determination of DNA molecules visualized by atomic force microscopy: Evidence for a partial B- to A-form transition on mica. Ultramicroscopy2001, 87, 55-66.
29. Brunauer, S.; Emmett, P. H.; Teller, E. Adsorption of gases in multimolecular layers. J. Am. Chem. Soc. 1938, 60, 309-319.
30. Dodson, M. H.; McClelland-Brown, E. Magnetic blocking temperatures of single-domain grains during slow cooling. J. Geophys. Res.: Solid Earth1980, 85, 2625-2637.
31. Andersen, J. Quantification of DNA by slot-blot analysis. MethodsMol. Biol. 1998, 98, 33-38.
32. Breadmore, M. C.; Wolfe, K. A.; Arcibal, I. G.; Leung, W. K.; Dickson, D.; Giordano, B. C.; Power, M. E.; Ferrance, J. P.; Feldman, S. H.; Norris, P. M., et al. Microchip-based purification of DNA from biological samples. Anal. Chem. 2003, 75, 1880-1886.
33. Lounsbury, J. A.; Coult, N.; Miranian, D. C.; Cronk, S. M.; Haverstick, D. M.; Kinnon, P.; Saul, D. J.; Landers, J. P. An enzyme-based DNA preparation method for application to forensic biological samples and degraded. Forensic Sci. Int.: Genet. 2012, 6, 607-615.
34. Golenberg, E. M.; Bickel, A.; Weihs, P. Effect of highly fragmented DNA on PCR. Nucl. Acids Res. 1996, 24, 5026-5033.
35. Ginoza, W.; Zimm, B. H. Mechanisms of inactivation of deoxyribonucleic acids by heat. Proc. Natl. Acad. Sci. 1961, 47, 639-652.
36. Lindahl, T.; Nyberg, B. Heat-induced deamination of cytosine residues in deoxyribonucleic acid. Biochemistry1974, 13, 3405-3410.
37. Liu, J.; Sun, Z. K.; Deng, Y. H.; Zou, Y.; Li, C. Y.; Guo, X. H.; Xiong, L. Q.; Gao, Y.; Li, Fu. Y.; Zhao, D. Y. Highly water-dispersible biocompatible magnetite particles with low cytotoxicity stabilized by citrate groups. Angew. Chem. Int. Ed. 2009, 48, 5875-5879.
38. 2 shell for removal of microcystins. J. Am. Chem. Soc. 2008, 130, 28-29.
39. Masters, J. R.; Thomson, J. A.; Daly-Burns, B.; Reid, Y. A.; Dirks, W. G.; Packer, P.; Toji, L. H.; Ohno, T.; Tanabe, H.; Arlett, C. F. et al. Short tandem repeat profiling provides an international reference standard for human cell lines. Proc. Natl. Acad. Sci. 2001, 98, 8012-8017.