Conformational change detection of DNA with the fluorogenic reagent of o-phthalaldehyde-beta-mercaptoethanol

The Journal of Physical Chemistry. B
Yun Fei LongYuan Fang Li

Abstract

o-Phthalaldehyde-beta-mercaptoethanol (OPAME) as a fluorogenic reagent has been found wide applications in the detection of amino acids based on its reaction with primary amino groups. In this contribution, we report our new findings concerning the reactions of OPAME with single-stranded DNA (ssDNA) and double-stranded DNA (dsDNA), respectively. It has been found that ssDNA can react with OPAME easily as a result of giving rise to strong fluorescence emissions, while dsDNA, prepared by hybridizing ssDNA with its complementary target prior to the reaction, displays inert chemical activity and gives out weak fluorescence emission. Mechanism investigations have shown that the reaction activity between OPAME and DNA depends on the amino groups that are related to the conformation of uncoiled and exposed extent of DNA structure, and thus the inert chemical activity of dsDNA results from screening of the dsDNA bases in the interior of the double strands. Therefore, we could design a way to detect conformation change of DNA with OPAME and further develop a novel, simple label-free sequence detection method for complementary and single-base mismatched ssDNA in the hybridization of DNA.

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Citations

Jun 13, 2017·Physical Chemistry Chemical Physics : PCCP·Jose M CarnereroRafael Prado-Gotor
Aug 6, 2009·Dalton Transactions : an International Journal of Inorganic Chemistry·Katelitsa TriantafillidiAchilleas Garoufis
Feb 12, 2010·Dalton Transactions : an International Journal of Inorganic Chemistry·Jin-Tao WangLiang-Nian Ji
May 16, 2019·Physical Chemistry Chemical Physics : PCCP·Elia GruesoR Prado-Gotor
Nov 7, 2012·Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry·Lingye YangGuojie Wang
Nov 30, 2010·Dalton Transactions : an International Journal of Inorganic Chemistry·Katelitsa TriantafillidiAchilleas Garoufis
Jul 10, 2008·The Journal of Physical Chemistry. B·Deboleena SarkarNitin Chattopadhyay
Mar 20, 2010·The Journal of Physical Chemistry. B·Fernando SeccoElia Grueso

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