Label-free DNA-methylation detection by direct ds-DNA fragment screening using poly-purine hairpins

Sanchez Huertas, C, Avino, A, Kurachi, C, Piqué, A, Sandoval, J, Eritja, R, Esteller, M and Lechuga, L 2018, 'Label-free DNA-methylation detection by direct ds-DNA fragment screening using poly-purine hairpins', Biosensors and Bioelectronics, vol. 120, pp. 47-54.

Document type: Journal Article
Collection: Journal Articles

Title Label-free DNA-methylation detection by direct ds-DNA fragment screening using poly-purine hairpins
Author(s) Sanchez Huertas, C
Avino, A
Kurachi, C
Piqué, A
Sandoval, J
Eritja, R
Esteller, M
Lechuga, L
Year 2018
Journal name Biosensors and Bioelectronics
Volume number 120
Start page 47
End page 54
Total pages 8
Publisher Elsevier BV
Abstract Cancer diagnosis continuously evolves due to the better understanding of tumorigenic processes. DNA-methylation is consolidated as an effective biomarker for cancer prognosis and diagnostic even in tumors of unknown origin. The reversibility of this epigenetic mechanism also places it as a high-profile tool for the development of more sophisticated and personalized therapies. Current methodologies, such as bisulfite conversion or PCR amplification, rely on complex procedures that make difficult the standardization of epigenetics analyses. Here we present an optical biosensor methodology based on Surface Plasmon Resonance that employs poly-purine reverse-Hoogsten hairpin probes capable of interacting directly with ds-DNA fragments by triple helix formation. The direct interaction with the material of interest can greatly enhance the reliability of the analysis providing a more accurate and precise diagnosis. We have demonstrated the capabilities of our methodology for the direct capture of ds-DNA fragments and specific methyl-cytosine quantification. Our poly-purine hairpin probe demonstrated the specific capture of ds-DNA fragments while the standard duplex-forming probes failed to do so. In addition, the biosensor methodology showed a strong correlation with the different DNA methylation status between the sequences with a low signal variation (<= 8%CV) along 35 hybridization/regeneration cycles. Through its straightforward procedure and versatility of detecting different DNA modifications related to the DNA methylation process, we anticipate that our strategy will enable a greater level of accuracy and precision in cancer diagnostics making a strong impact on the development of personalized therapies.
Subject Medical Devices
Medical Biotechnology Diagnostics (incl. Biosensors)
Keyword(s) DNA methylation
DNA capture
Surface plasmon resonance
DOI - identifier 10.1016/j.bios.2018.08.027
Copyright notice © 2018 Elsevier B.V. All rights reserved.
ISSN 0956-5663
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