Mechanism of the hairpin folding transformation of thymine-cytosine–rich oligonucleotides induced by Hg(II) and Ag(I) ions

Wei Ding; Mengze Xu; Hong Zhu; Haojun Liang

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Mechanism of the hairpin folding transformation of thymine-cytosine–rich oligonucleotides induced by Hg(II) and Ag(I) ions

机译：Hg（II）和Ag（I）离子诱导富含胸腺嘧啶胞嘧啶的寡核苷酸发夹折叠转化的机制

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The metal-induced folding of thymine-cytosine–rich oligonucleotides into hairpin-like structures was characterised by isothermal titration calorimetry, secondary structure analysis, equilibrium titrations, and fluorescence study. We find that designed thymine-cytosine–rich oligonucleotides can specifically bind with Hg(II) or Ag(I) ions to generate metal-mediated base pairs in a hairpin-like structure from a random coil structure. Isothermal titration calorimetry experiments were performed to reveal the detail of the whole binding process. The thermodynamic result exhibits two possible pathways of significant change upon the addition of Hg(II) ions. Furthermore, this transformation can be enhanced by the presence of Ag(I) ions. The fluorescence decreases through fluorescence resonance energy transfer (FRET) between the fluorophore and quencher confirms the process of formation of the hairpin-like structure. The analysis of optical titration data demonstrates that the saturated binding stoichiometries are 12:1 and 4:1 for Hg(II) and Ag(I) ions, respectively. Our result provides a promising strategy for the investigation of the mechanism of structural transformation of oligonucleotides influenced by metal-mediated base pairs, which may eventually lead to progress in constructing a metal-triggered DNA origami system and metal-containing DNA nanotechnology.

机译：金属诱导的富含胸腺嘧啶胞嘧啶的寡核苷酸折叠成发夹状结构的特征是通过等温滴定热分析，二级结构分析，平衡滴定和荧光研究。我们发现，设计的富含胸腺嘧啶核苷的寡核苷酸可以与Hg（II）或Ag（I）离子特异性结合，从而从随机线圈结构中以发夹状结构生成金属介导的碱基对。进行等温滴定量热实验以揭示整个结合过程的细节。添加Hg（II）离子后，热力学结果显示出两条可能发生显着变化的途径。此外，可以通过Ag（I）离子的存在来增强这种转化。通过荧光团和猝灭剂之间的荧光共振能量转移（FRET），荧光减弱，从而确认了发夹状结构的形成过程。光学滴定数据的分析表明，Hg（II）和Ag（I）离子的饱和结合化学计量比分别为12：1和4：1。我们的结果为研究受金属介导的碱基对影响的寡核苷酸的结构转化机理提供了有前途的策略，这可能最终导致在构建金属触发的DNA折纸系统和含金属的DNA纳米技术方面取得进展。

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《The European physical journal, E. Soft matter》 |2013年第9期|共8页
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Wei Ding; Mengze Xu; Hong Zhu; Haojun Liang;
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正文语种 eng
中图分类物理学;
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Mechanism; hairpin folding; transformation;

机译：机构;发夹折叠;变形;

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1. Mechanism of the hairpin folding transformation of thymine-cytosine–rich oligonucleotides induced by Hg(II) and Ag(I) ions [J] . Wei Ding, Mengze Xu, Hong Zhu, The European physical journal, E. Soft matter . 2013,第9期

机译：Hg（II）和Ag（I）离子诱导富含胸腺嘧啶胞嘧啶的寡核苷酸发夹折叠转化的机制
2. Possible Mechanisms for the Nucleation of Primary Fracture Zones during Deformation-Induced Phase Transformations in Solids: II. The Role of Phase Transitions between the States of Aggregation [J] . L. S.Vasilev Russian Metallurgy(Metally) . 2007,第6期

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3. Switching the recognition preference of thiourea derivative by replacing Cu2+: spectroscopic characteristics of aggregation-induced emission and mechanism studies for recognition of Hg(II) in aqueous solution [J] . Wang Aizhi, Yang Yunxu, Yu Feifei, Analytical methods . 2015,第6期

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4. Fe(II)-induced Transformation of Ferrihydrite in Sulfate-rich Environment [C] . Yu Xiaole, rnNi Daning, rnLi Zhengjun, The 6th China international conference on nanoscience and technology . 2007

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5. Experimental Studies of Hg(II)-Hg(0) Transformations and Their Effects on Hg Isotope Fractionation [D] . Wang, Thomas Charng-Shuen. 2019

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6. Soft metal ions Cd(II) and Hg(II) induce triple-stranded alpha-helical assembly and folding of a de novo designed peptide in their trigonal geometries. [O] . X. Li, K. Suzuki, K. Kanaori, 2000

机译：软金属离子Cd（II）和Hg（II）会在其三角几何形状中诱导三链α-螺旋组装和从头设计的肽折叠。
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Mechanism of the hairpin folding transformation of thymine-cytosine–rich oligonucleotides induced by Hg(II) and Ag(I) ions

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