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Title: Organic additives stabilize RNA aptamer binding of malachite green
Authors: Zhou, Yubin
Chi, Hong
Wu, Yuanyuan
Marks, Robert S.
Steele, Terry W. J.
Keywords: Malachite green aptamer
Malachite green
Issue Date: 2016
Source: Zhou, Y., Chi, H., Wu, Y., Marks, R. S., & Steele, T. W. J. (2016). Organic additives stabilize RNA aptamer binding of malachite green. Talanta, 160, 172-182.
Series/Report no.: Talanta
Abstract: Aptamer-ligand binding has been utilized for biological applications due to its specific binding and synthetic nature. However, the applications will be limited if the binding or the ligand is unstable. Malachite green aptamer (MGA) and its labile ligand malachite green (MG) were found to have increasing apparent dissociation constants (Kd) as determined through the first order rate loss of emission intensity of the MGA-MG fluorescent complex. The fluorescent intensity loss was hypothesized to be from the hydrolysis of MG into malachite green carbinol base (MGOH). Random screening organic additives were found to reduce or retain the fluorescence emission and the calculated apparent Kd of MGA-MG binding. The protective effect became more apparent as the percentage of organic additives increased up to 10% v/v. The mechanism behind the organic additive protective effects was primarily from a ~5X increase in first order rate kinetics of MGOH→MG (kMGOH→MG), which significantly changed the equilibrium constant (Keq), favoring the generation of MG, versus MGOH without organic additives. A simple way has been developed to stabilize the apparent Kd of MGA-MG binding over 24 h, which may be beneficial in stabilizing other triphenylmethane or carbocation ligand-aptamer interactions that are susceptible to SN1 hydrolysis.
ISSN: 0039-9140
DOI: 10.1016/j.talanta.2016.06.067
Rights: © 2016 Elsevier. This is the author created version of a work that has been peer reviewed and accepted for publication by Talanta, Elsevier. It incorporates referee’s comments but changes resulting from the publishing process, such as copyediting, structural formatting, may not be reflected in this document. The published version is available at: [].
Fulltext Permission: open
Fulltext Availability: With Fulltext
Appears in Collections:MSE Journal Articles

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