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Chapter 1 86 T. Tedeschi, S. Sforza, S. Ye, R. Corradini, A. Dossena, M. Komiyama, R. Marchelli, J. Biochem. Biophys. Methods, 2007, 70, 735 87 X. Su, R. Kanjanawarut, ACS Nano, 2009, 3, 9, 2751 88 G. Prencipe, S. Maiorana, P. Verderio, M. Colombo, P. Fermo, E. Caneva, D. Prosperi, E. Licandro, Chem. Comm., 2009, 6017 89 H. Kuhn, V. V. Demidov, J. M. Coull et al., J. Am. Chem. Soc., 2002, 9, 124, 6, 1097 90 D. V. Jarikote, O. Köhler, E. Socher, O. Seitz, Eur. J. Org. Chem., 2005, 3187 91 H. Perry-O’keefe, X. W. Yao, J. M. Coull, M. Fuchs, M Egholm, Proc. Natl. Acad. Sci. USA, 1996, 93, 14670 92 A. T.-Salazar, J. Dhawan, A. Lovejoy, Q. A. Liu, A. N. Gifford, Anal. Biochem., 2007, 360, 92 93 T. Tedeschi, M. Chiari, G. Galaverna, S. Sforza, M. Cretich, R. Corradini, R. Marchelli, Electrophoresis, 2005, 26, 4310 94 S. Rossi, F. Lesignoli, A. Germini, A. Faccini, S. Sforza, R. Corradini, R. Marchelli, Journal of Agricultural and Food chemistry, 2007, 55, 7, 2509 95 F. Totsingan, S. Rossi, R. Corradini et al., Organic & Biomolecular Chemistry, 2008, 6, 7, 1232 96 H. 0rum, P. E.Nielsen, M. Egholm et al., Nucleic Acids Research, 1993, 21, 23, 5336 97 C. Peano, F. Lesignoli, M. Gulli, R. Corradini, M.C. Samson, R. Marchelli, N. Marmiroli, Anal. Biochem., 2005, 344, 174 98 K. Petersen, U. Vogel, E. Rockenbauer, K. V. Nielsen, S. Kølvraa, L. Bolund, B. Nexø, Molecular and Cellular Probes, 2004, 18, 117 99 S. Rossi, E. Searavelli, A. Germini, R. Corradini, C. Fogher, R. Marchelli, European Food Research and Technology, 2006, 223, 1, 1 100 A. Calabretta, T. Tedeschi, G. Di Cola, R. Corradini, S. Sforza, R. Marchelli, Molecular Biosystems, 2009, 5, 11, 1323 101 N. Zhang, D. H. Appella, J. Am. Chem. Soc., 2007, 129, 8424 102 R. D'Agata, R. Corradini, G. Grasso, R. Marchelli, G. Spoto, ChemBioChem, 2008, 9, 13, 2067 103 C. Fanga, A. Agarwal, K. D. Buddharaju et al., Biosensors & Bioelectronics, 2008, 24, 216 104 C. Yao, T. Zhub, J. Tang, Biosensors & Bioelectronics, 2008, 23, 879 105 J. Wang, Biosensors & Bioelectronics, 1998, 13, 757 106 D. P. Chandler, J. R. Stultus, S. Cebula,B. L. Schuck, D. W. Weaver, K. K. Anderson, Applied and Enviromental Microbiology,2000, 3438 107 H. Perry-O’Keefe, S. Rigby, K. Oliveira, D. Sørensen, H. Stender, J. Coull, J.J. Hyldig-Nielsen, Journal of Microbiological Methods, 2001, 47, 281 108 L. Cerqueira, N. F. Azevedo, C. Almeida, T. Jardim, C. W. Keevil, M. J. Vieira, Int. J. Mol. Sci., 2008, 9, 1944 109 J. Hu, D. R. Corey, Biochemistry, 2007, 46, 7581 110 A. Faccini , A. Tortori, T. Tedeschi et al., Chirality, 2007,20, 494 111 M. I. Onyshchenko, T. I. Gaynutdinov, E. A. Englund, D. H. Appella,R. D. Neumann and I. G. Panyutin, Nucleic Acids Research, 2009, 1 112 J. Kurreck, Eur. J. Biochem., 2003, 270, 1628 113 S. Y. Oh, Y. S. Ju, H. Park, Molecules and Cells, 2009, 1 114 M. M. Fabani, J. G. Michael, RNA, 2008, 14, 336 38
Chapter 2 Label-free detection of Single Nucleotide Polymorphisms (SNPs): PNA Molecular Beacons In this chapter the application of modified PNAs for SNP detection is shown. PNA beacons allow to detect complementary DNA sequences without the necessity to label it before or after PCR amplification. Upon hybridization, in fact, these molecules emit a fluorescence signal which is highly enhanced if compared to that of the free unhybridized beacon. The probes here presented were designed in order to recognize a SNP which is diagnostic for the olive cultivar “Ogliarola Leccese”. Three beacons of different length were synthesized, in order to test the recognition performances in relation to the PNA length. The application in AE-HPLC, together with solution assays, allowed to identify the ideal length for specific and efficient DNA hybridization and to verify the PNA probes performances. After optimization of the method, the probe was applied to recognize the SNP in a sample of DNA extracted from olive leaves and amplified by PCR. It has been shown that this methodology can be applied to real samples. 39
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Arg-PNA Microarrays 30 T. Tedeschi,
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Chapter 5 5.1 Introduction The incr
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Chapter 5 be printed, in order to m
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Chapter 5 Table 5-1. PNA sequences
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Chapter 5 printing the PNA on a gla
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Chapter 5 22.4°C 24.0°C 25.5°C 2
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Chapter 5 PNA 3 PNA 5 PNA 6 Slide 1
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Chapter 5 times. The substrates wer
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Chapter 5 chemicals were used as re
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Chapter 5 5.4.6 Microcontact Printi
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Chapter 5 5.5 References 1 A. L. Be
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Chapter 6 6.1 Introduction The use
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Chapter 6 Among all the peptides us
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Chapter 6 Figure 6-2: A standard PN
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Chapter 6 peptide 1 and the PNA tri
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Chapter 6 6.2.2 Uptake experiments
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Chapter 6 (HBTU), N-[(dimethylamino
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Chapter 6 1.41 (s, 9H, Boc methyl g
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Chapter 6 Arg + CHα Lys), 4.0-4.6
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Chapter 6 12 B. P. Gangamani, V. A.
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Contributions Publications includin
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