Abstract
Piezoelectric sensing has been widely applied for affinity sensing, and recently sensitive DNA detection has been reported in different matrices for different analytes (i.e. target sequences). In this chapter, the detection principle and the approaches used in DNA-based sensing with focus on detection of microsatellite DNA, present in high number of copy as well as target sequence detection of genes present in one or few copy number per haploid genome will be presented and discussed. Particular attention will be devoted to the pre-analytical steps which may influence the sensor response to the target analyte such as genomic DNA fragmentation and denaturation. Comparison between immobilization chemistries is also presented. In particular, finding in microsatellite detection with both biotinylated and thiolated probes is reported and discussed.
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References
Curie, J., Curie, P.: An oscillating quartz crystal mass detector. Rendu 91, 294–297 (1880)
Krempl, P., Schleinzer, G., Wallnöfer, W.: Gallium phosphate, GaPO4: a new piezoelectric crystal material for high-temperature sensorics. Sens. Actuat. A 61, 361–363 (1997)
Vasilescu, A., Ballantyne, S.M., Cheran, L.E., Thompson, M.: Surface properties and electromagnetic excitation of a piezoelectric gallium phosphate biosensor. Analyst 130, 213–220 (2005)
Janshoff, A., Steinem, C.: Quartz crystal microbalance for bioanalytical applications. Sensor Update 9, 313–354 (2001)
Bruckenstein, S., Shay, M.: Experimental aspects of the use of quartz crystal microbalance solution. Electrochim. Acta 30, 1295–1300 (1985)
O’Sullivan, C.K., Guilbault, G.G.: Commercial quartz crystal microbalances – theory and applications. Biosens. Bioelectron. 14, 663–670 (1999)
Sauerbrey, G.: The use of quartz oscillators for weighing thin layers and for microweighing. Z. Physik 155, 206–222 (1959)
Hiller, A.C., Ward, M.D.: Scanning electrochemical mass sensitivity mapping of the quartz crystal. Anal. Chem. 64, 2539–2554 (1992)
Kanazawa, K.K., Gordon, J.G.: Frequency of a quartz microbalance in contact with liquid. Anal. Chem. 57, 1770–1771 (1985)
Chang, S., Muramatsu, H., Nakamura, C., Miyake, J.: The principle and applications of piezoelectric crystal sensors. Mater. Sci. Eng. C 12, 111–123 (2000)
Minunni, M., Mascini, M., Guilbault, G.G., Hock, B.: The quartz crystal microbalance as biosensor. A status report on its future. Anal. Lett. 28, 749–764 (1995)
Kim, N., Park, I.-S., Kim, D.-K.: Characteristics of a label-free piezoelectric immunosensor detecting Pseudomonas aeruginosa. Sens. Actuat. B 100, 432–438 (2004)
Mannelli, I., Minunni, M., Tombelli, S., Mascini, M.: Quartz Crystal Microbalance (QCM) affinity biosensor for Genetically Modified Organisms (GMOs) detection. Biosens. Bioelectron. 18, 129–140 (2003)
Tombelli, S., Mascini, M., Sacco, C., Turner, A.P.F.: A DNA piezoelectric biosensor assay coupled with a polymerase chain reaction for bacterial toxicity determination in environmental samples. Anal. Chim. Acta 418, 1–9 (2000)
Sklàdal, P., dos Santos Riccardi, C., Yamanaka, H., Inàcio da Costa, P.: Piezoelectric biosensor for real time monitoring of hybridization and detection of hepatitis C virus. J Virol Methods 117, 145–151 (2004)
Dell’Atti, D., Tombelli, S., Minunni, M., Mascini, M.: Detection of clinically relevant point mutations by a novel piezoelectric biosensor. Biosens. Bioelectron. 21, 1876–1879 (2006)
Kukanskis, K., Elkind, J., Melendez, J., Murphy, T., Miller, G., Garner, H.: Detection of DNA hybridization using the TISPR-1 surface plasmon resonance biosensor. Anal. Biochem. 274, 7–17 (1999)
Allara, D.L., Nuzzo, R.G.: Adsorption of bifunctional organic disulfides on gold surfaces. J. Am. Chem. Soc. 105, 4481–4483 (1983)
Tombelli, S., Mascini, M., Turner, A.P.F.: Improved procedures for immobilisation of oligonucleotides on gold-coated piezoelectric quartz crystals. Biosens. Bioelectron. 17, 929–936 (2002)
Tombelli, S., Minunni, M., Mascini, M.: Piezoelectric biosensors: strategies for coupling nucleic acid to piezoelectric devices. Methods 37, 48–56 (2005)
Powdrill, T.F.: Publication number: WO03057858 (A2), European patent: C12Q1/68B10A; Y01N6/00, Application number: WO2003US00069 20030102 (2003)
Ermini, M.L., Scarano, S., Bini, R., Banchelli, M., Berti, D., Mascini, M., Minunni, M.: A rational approach in probe design for nucleic acid-based biosensing. Biosens. Biolectron. 26, 4785–4790 (2011)
Sambrook, J., Fritsch, E.F., Maniatis, T.: Molecular Cloning: A Laboratory Manual. Laboratory Press, New York (1989)
Almadidy, A., Watterson, J., Piunno, P.A.E., Raha, S., Foulds, I.V., Horgen, P.A., Castle, A., Krull, U.: Direct selective detection of genomic DNA from coliform using a fiber optic biosensor. Anal. Chim. Acta 461, 37–47 (2002)
D’Agata, R., Corradini, R., Ferretti, C., Zanoli, L., Gatti, M., Marchelli, R., Spoto, G.: Ultrasensitive detection of non-amplified genomic DNA by nanoparticle-enhanced surface plasmon resonance imaging. Biosens. Bioelectron. 25, 2095–2100 (2010)
Lewin, B.: Genes VI. Oxford University Press, Oxford (1997)
Minunni, M., Mannelli, I., Spiriti, M.M., Tombelli, S., Mascini, M.: A biosensor for the detection of highly repeated sequences in non-amplified genomic DNA. Anal. Chim. Acta 526, 19–25 (2004)
Mariotti, E., Minunni, M., Mascini, M.: Surface Plasmon Resonance (SPR) biosensor for Genetically Modified Organism (GMOs) detection. Anal. Chim. Acta 453, 165–172 (2002)
Minunni, M., Mascini, M., Mascini, M., Cozzani, I.: Screening methodologies for genetically modified organisms (GMOs). Anal. Lett. 215(33), 3093–3126 (2000)
Bianchi, N., Rutigliano, C., Tomassetti, M., Feriotto, G., Zorzato, F., Gambari, R.: Biosensor technology and surface plasmon resonance for real time detection of HVI1 genomic sequence amplified by polymerase chain reaction. Clin. Diagn. Virol. 8, 199–208 (1997)
Feriotto, G., Borgatti, M., Mischiati, C., Bianchi, N., Gambari, R.: Biosensor technology and surface plasmon resonance for real-time detection of genetically modified Roundup Ready soybean gene sequences. J. Agric. Food Chem. 50, 955–962 (2002)
Giakoumaki, E., Minunni, M., Tombelli, S., Tothill, I.E., Mascini, M., Bogani, P., Buiatti, M.: Combination of amplification and post-amplification strategies to improve optical DNA sensing. Biosens. Bioelectron. 19, 337–344 (2003)
Alberts, B., Bray, D., Lewis, J., Raff, M., Roberts, K., Watson, J.D.: Molecular Biology of the Cell. Garland Publishing Inc., New York (1994)
Bhattacharyya, A.J., Feingold, M.: Single molecule study of reaction between DNA and formamide. Talanta 55, 943–949 (2001)
Minunni, M., Tombelli, S., Fonti, J., Spiriti, M.M., Mascini, M., Bogani, P., Buiatti, M.: Detection of genomic DNA by PCR-free piezoelectric sensing. J. Am. Chem. Soc. 127, 7966–7967 (2005)
Wang, R., Minunni, M., Tombelli, S., Mascini, M.: A new approach for the detection of specific DNA sequences in amplified nucleic acids by surface plasmon resonance biosensor. Biosens. Bioelectron. 20, 598–605 (2004)
Minunni, M., Tombelli, S., Mascini, M.: Biosensor approach for DNA sequences detection in non-amplified genomic DNA. Anal. Lett. 40(7), 1360–1367 (2007)
Pech, M., Streeck, R.E., Zachau, H.G.: Patchwork structure of a bovine satellite DNA. Cell 18, 883–893 (1979)
Hunt, D.J., Parkes, H.C., Lumley, I.D.: Identification of the species of origin of raw and cooked meat products using oligonucleotide probes. Food Chem. 60, 437–442 (1997)
Kim, H., Shelef, L.A.: Characterization and identification of raw beef, pork, chicken and turkey meats by electrophoretic patterns of their sarcoplasmic proteins. J. Food Sci. 51, 731–741 (1986)
Skarpeid, H.J., Kvaal, K., Hildrum, K.I.: Identification of animal species in ground meat mixtures by multivariate analysis of isoelectric focusing protein profiles. Electrophoresis 19, 3103–3109 (1998)
Toorop, R.M., Murch, S.J., Ball, R.O.: Methodology and development of prediction equations for the determination of pork substitution in veal. Food Res. Int. 30, 629–636 (1997)
Ashoor, S.H., Monte, W.C., Stiles, P.G.: Liquid-chromatographic identification of meats. J. Ass. Off. Anal. Chem. 71, 397–403 (1998)
Hsien, Y.H., Sheu, S.C., Bridgman, R.C.: Development of a monoclonal antibody specific to cooked mammalian meats. J Food Prot 61, 476–481 (1998)
Lenstra, J.A., Buntjer, J.B., Janssen, F.W.: On the origin of meat – DNA techniques for species identification in meat products. Vet. Sci. Tomorrow 2, 1–15 (2001)
Calvo, J.H., Rodellar, C., Zaragoza, P., Osta, R.: Beef- and bovine-derived material identification in processed and unprocessed food and feed by PCR amplification. J. Agric. Food Chem. 50, 5262–5264 (2002)
Partis, L., Croan, D., Guo, Z., Clark, R., Coldham, T., Murby, J.: Evaluation of a DNA fingerprinting method for determining the species origin of meats. Meat Sci. 54, 369–376 (2000)
Baur, V.C., Teifel-Greding, J., Liebhardt, E.: Identification of heat-processed meat by DNA analysis. Arch. Lebensmittel Hyg. 38, 149–176 (1987)
Chikuny, K., Ozutsumi, K., Koishikawa, T., Kato, S.: Species identification of cooked meats by DNA hybridization assay. Meat Sci. 27, 119–128 (1990)
Ebbehøj, K.F., Thomsen, P.D.: Species differentiation of heated meat-products by DNA hybridization. Meat Sci. 30, 221–234 (1991)
Winterø, A.K., Thomsen, P.D., Davies, W.: A comparison of DNA-hybridization, immunodiffusion, countercurrent immunoelectrophoresis and isoelectric-focusing for detecting the admixture of pork to beef. Meat Sci. 27, 75–85 (1990)
Verkaar, E.L.C., Nijman, I.J., Boutaga, K., Lenstra, J.A.: Differentiation of cattle species in beef by PCR-RFLP of mitochondrial and satellite DNA. Meat Sci. 60, 365–369 (2002)
Meyer, R., Candrian, U., Lüthy, J.: Detection of pork in heated meat products by the polymerase chain-reaction. J. AOAC Int. 77, 617–622 (1995)
Meyer, R., Höfelein, C., Lüthy, J., Candrian, U.: Polymerase chain reaction-restriction fragment length polymorphism analysis: a simple method for species identification in food. J. AOAC Int. 78, 1542–1551 (1995)
Meyer, R.: Nachweis gentechnologisch veränderter Pflanzen mittels der Polymerase Kettenreaktion (PCR) am Beispiel der FLAVRSAVRTM-Tomate, Z. Lebensm, Unters. Forsch. 201, 583–586 (1995)
Meyer, R., Candrian, U.: PCR-based DNA analysis for the identification and characterization of food components. Lebensm. Wiss. Technol. 29, 1–9 (1996)
Murray, B.W., McClymont, R.A., Strobeck, C.: Forensic identification of ungulate species using restriction digests of PCR-amplified mitochondrial DNA. J. Forensic Sci. 40, 943–951 (1995)
Saez, R., Sanz, Y., Toldrá, F.: PCR-based fingerprinting techniques for rapid detection of animal species in meat. Meat Sci. 66, 659–665 (2004)
Jonker, K., Tilburg, J., Hagele, G., De Boer, E.: Species identification in meat products using real-time PCR. Food Addi. Contam. 25, 527–533 (2008)
Mannelli, I.: PhD thesis, University of Florence (2006)
EU Labelling And Traceability Regulation, Regulation (Ec) No 1830/2003 of The European Parliament and of the Council, 22 September (2003)
Kaewphinit, T., Santiwatanakul, S., Promptmas, C., Chansiri, K.: Detection of mycobacterium tuberculosis in clinical specimens. Sens. Transd. J. 113, 115–126 (2010)
Yao, C., Zhu, T., Tang, J., Wu, R., Chen, Q., Chen, M., Zhang, B., Huang, J., Fu, W.: Hybridization assay of hepatitis B virus by QCM peptide nucleic acid biosensor. Biosens. Bioelectron. 23, 879–885 (2008)
Stobiecka, M., Cieśla, J.M., Janowska, B., Tudek, B., Radecka, H.: Piezoelectric sensor for determination of genetically modified soybean roundup ready in samples not amplified by PCR. Sensors 7, 1462–1479 (2007)
Karamollaoglu, I., Öktem, H.A., Mutlu, M.: QCM-based DNA biosensor for detection of genetically modified organisms (GMOs). Biochem. Eng. J. 44, 142–150 (2009)
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Minunni, M. (2012). Piezoelectric Sensing for Sensitive Detection of DNA. In: Spoto, G., Corradini, R. (eds) Detection of Non-Amplified Genomic DNA. Soft and Biological Matter. Springer, Dordrecht. https://doi.org/10.1007/978-94-007-1226-3_8
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DOI: https://doi.org/10.1007/978-94-007-1226-3_8
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