Abstract
Single base-specific detection of DNA/RNA sequences is of importance in the diagnosis of disease-associated genetic disorders or early stage cancer. This chapter introduces DNA-templated native chemical PNA ligation as a potentially useful tool for the sequence specific detection of nucleic acids. The template-induced alignment of PNA-thioesters and 1,2-aminothiol-PNAs in close proximity leads to an increase in their effective molarities. This facilitates PNA ligation to proceed at concentrations where no reaction would be possible in absence of the template. Moreover, hybridization of the rather short PNA conjugates with non-complementary DNA/RNA is disfavored, which prevents PNA ligation to occur on single base-mismatched templates. Different readout strategies of the ligation reaction such as HPLC, MALDI-TOF-MS and fluorecence monitoring are discussed, and examples for the detection of a point mutation within single stranded and PCR-amplified double stranded DNA are provided.
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References
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Exctinction coefficients can be calculated on http://biophysics.idtdna.com/UVSpectrum.html; also see: Tataurov AV, You Y, Owczarzy R (2008) Predicting ultraviolet spectrum of single stranded and double stranded deoxyribonucleic acids. Biophys Chem 133:66–70
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Roloff, A., Ficht, S., Dose, C., Seitz, O. (2014). DNA-Templated Native Chemical Ligation of Functionalized Peptide Nucleic Acids: A Versatile Tool for Single Base-Specific Detection of Nucleic Acids. In: Nielsen, P., Appella, D. (eds) Peptide Nucleic Acids. Methods in Molecular Biology, vol 1050. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-62703-553-8_11
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DOI: https://doi.org/10.1007/978-1-62703-553-8_11
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Publisher Name: Humana Press, Totowa, NJ
Print ISBN: 978-1-62703-552-1
Online ISBN: 978-1-62703-553-8
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