Synthesis of novel di-Se-containing thymidine and Se-DNAs for structure and function studies

The selenium derivatization of nucleic acids and nucleic acid-protein complexes has provided a powerful tool to solve phase problem in X-ray crystallography.Selenium atoms in the nucleotides can serve as fine scattering centers in crystal diffraction.Towards the synthesis of multiple selenium atom-containing nucleotides,which offers strong phasing power to facilitate crystal structure determination,we report here the synthesis of the thymidine analogue containing two Se atoms in one nucleobase.The novel Se-containing nucleoside and oligonucleotide DNAs were synthesized and found with the red-shifted UV spectrum and yellow color.Their unique properties are useful in phase determination,nucleic acid-based detection as well as spectroscopic studies of nucleic acids and nucleic acid-protein complexes.     

Selective DNA detection at Zeptomole level based on coulometric measurement of gold nanoparticle-mediated electron transfer across a self-assembled monolayer

A selective DNA sensing with zeptomole detection level is developed based on coulometric measurement of gold nanoparticle (AuNPs)-mediated electron transfer (ET) across a self-assembled monolayer on the gold electrode. After immobilization of a thiolated hairpin-structured DNA probe, an alkanethiol monolayer was self-assembled on the resultant electrode to block [Fe(CN)6 ]-3-/4in a solution from accessing the electrode. In the presence of DNA target, hybridization between the DNA probe and the DNA target breaks the stem duplex of DNA probe. Consequently, stem moiety at the 3′-end of the DNA probes was removed from the electrode surface and made available for hybridization with the reporter DNA-AuNPs conjugates (reporter DNA-AuNPs). The thiolated reporter DNA matches the stem moiety at the 3′-end of the DNA probe. AuNPs were then enlarged by immersing the electrode in a growth solution containing HAuCl 4 and H2O2 after the reporter DNA-AuNPs bound onto the electrode surface. The enlarged AuNPs on the electrode restored the ET between the electrode and the [Fe(CN)6]3 -/4- , as a result, amplified signals were achieved for DNA target detection using the coulometric measurement of Fe(CN)6 3- electro-reduction by prolonging the electrolysis time. The quantities of ET on the DNA sensor increased with the increase in DNA target concentration through a linear range of 3.0 fM to 1.0 pM when electrolysis time was set to 300 s, and the detection limit was 1.0 fM. Correspondingly, thousands of DNA (zeptomole) copies were detected in 10L samples. Furthermore, the DNA sensor showed excellent differentiation ability for single-base mismatch.     

纳米孔分析化学

源于自然界,服务于人类社会的纳米尺度装置包括生物及人工制备的纳米孔与纳米通道等。基于这些纳米尺度装置的分析化学简称纳米孔分析化学。本文对纳米孔分析化学的发展,特别是近年来在DNA测序、蛋白质分析的进展进行了综述,对于纳米孔分析化学发展的历史、基本分类、原理和应用作了介绍与展望。     

基于β-环糊精主客体识别作用的均相DNA杂交电化学生物分子识别研究

基于β-环糊精(β-CD)和间甲基苯甲酸(mTA)的主客体识别,建立了均相DNA杂交电化学生物传感技术。将主体分子β-CD通过电化学聚合的方法固定在氮乙酰基苯胺修饰的玻碳电极表面,同时将mTA通过酸胺缩合反应标记在探针DNA序列上,与目标DNA在溶液均相中杂交之后,用修饰好的电极对探针DNA上的mTA进行主客体识别。以两种嵌入剂作为电化学指示剂——亚甲基蓝(MB)和道诺霉素(DNM),证实了方法的可行性。MB的电化学信号与完全互补DNA浓度在2.0×10"12～2.0×10"10mol/L之间呈良好线性关系,检出限为7.6×10"13mol/L;DNM的电化学响应与完全互补DNA浓度在1.0×10"12～1.0×10"9mol/L之间呈良好线性关系,检出限可达6.0×10"13mol/L,并表现出良好的重现性和稳定性。     

Capability of DNA-fueled molecular machine in tuning association rate of DNA-functionalized gold nanoparticles

The capability of our newly developed DNA-machine-driven strategy in tuning the association rate of DNA-AuNPs was compared with that of linker-addition strategy which has potential practical applications in different fields. The new established strategy shows its superiority to the linker-addition strategy in tuning the association rate of DNA-AuNPs in both pre-incubation treatment and non-incubation treatment conditions since its two components (a complex and a catalyst-oligonucleotide) can be individually optimized to make the machine run at an optimal rate. This strategy will provide a more convenient and flexible option in designing an oligonucleotide detection system and building a complex and versatile device.     

无标记增强型检测Hg2+的荧光DNA传感器

基于Hg2+与T–T错配碱基对能特异性结合形成T-Hg2+-T结构以及结晶紫(CV)与单、双链DNA作用后荧光信号的差异,构建了一种荧光增强型检测Hg2+的DNA生物传感器。实验考察了不同序列DNA及溶液的pH、DNA与CV浓度比、稳定时间等因素对灵敏度的影响。在优化的条件下体系荧光效率和Hg2+浓度在2～40 nmol/L范围内呈良好的线性关系,检出限为0.7 nmol/L。并且高浓度的Ca2+,Mg2+等常见金属离子对Hg2+的检测没有干扰。方法为重金属Hg2+的检测提供了一个较好的荧光分析方法。     

基于氧化石墨烯识别特定双螺旋DNA

依据三螺旋DNA的形成,以氧化石墨烯为基础建立了一种识别特定序列双螺旋DNA的方法。单链探针DNA能够通过静电引力作用吸附在氧化石墨烯表面,标记在单链DNA末端的荧光探针分子TAMRA由于荧光能量共振转移作用使得其荧光发生淬灭。加入目标双螺旋DNA后,单链探针DNA与目标DNA分子形成三螺旋DNA,探针DNA从氧化石墨烯表面脱附,标记在探针DNA上的荧光分子的荧光恢复。在最佳实验条件下,荧光恢复的强度与探针DNA的浓度在20.0～300.0 nmol/L具有良好的线性关系,检出限为16.9 nmol/L。该方法在DNA药物筛选及基因疾病的诊断方面具有一定的应用前景。     

联吡啶[3,2-a：2’,3-c]-7-氮杂-吩嗪铜(I)配合物的合成、表征及其与DNA的相互作用

合成了邻菲罗啉衍生物联吡啶[3,2-a:2',3'-c]-7-氮杂-吩嗪(dpapz)及其铜(I)配合物[Cu(dpapz)₂]PF₆, 利用核磁共振氢谱(¹H NMR), 傅里叶变换红外(FTIR)光谱, 高分辨质谱(HR ESI-MS)等对合成的化合物进行了表征.采用紫外-可见吸收光谱,荧光光谱, DNA熔解温度实验和循环伏安方法研究了dpapz和[Cu(dpapz)₂]PF₆与小牛胸腺DNA(CT DNA)的相互作用. 配体dpapz与小牛胸腺DNA(CT DNA)作用时未观察到吸收峰红移并且减色效应较小(<30%), 且DNA熔解温度也上升较小(ΔT_m=7.8 ℃), 说明dpapz以沟槽结合的方式与CT DNA相互作用. 而[Cu(dpapz)₂]PF₆与CT DNA作用时, 可观测到较小的吸收峰红移(2-3 nm)和较大的减色效应(>50%), 同时DNA熔解温度上升较大(ΔT_m=11.1 ℃), 表明[Cu(dpapz)₂]PF₆以静电相互作用和部分扦插的方式与DNA结合. 溴乙锭(EB)荧光竞争实验和循环伏安实验进一步证实了这一结论. 配体dpapz和[Cu(dpapz)₂]PF₆与DNA的结合常数分别为2.88×10⁵和5.32×10⁵ mol·L^-1. 光照条件下, [Cu(dpapz)₂]PF₆产生单重态氧的能力与dpapz相当, 但产生超氧负离子自由基的能力要弱于dpapz. 活性氧猝灭实验表明, 超氧负离子自由基、单重态氧和羟基自由基均参与了dpapz和[Cu(dpapz)₂]PF₆对DNA的光损伤作用. [Cu(dpapz)₂]PF₆对DNA的亲和性要高于对dpapz的, 使得[Cu(dpapz)₂]PF₆对质粒DNA的光损伤效率明显强于dpapz.     

磷酸基团在环丙沙星光敏损伤DNA中的作用

利用紫外-可见稳态吸收光谱, 稳态荧光发射光谱和激光光解瞬态光谱实验方法研究了磷酸基团在环丙沙星(CPX)光敏损伤DNA中的作用. 紫外-可见和稳态荧光光谱实验证实了磷酸根离子影响环丙沙星的稳态吸收和发射谱, 实验结果表明磷酸根是通过弱相互作用与环丙沙星结合. 我们还利用激光闪光光解实验分别研究了鸟苷(Gua), 脱氧鸟苷(dG)以及脱氧鸟苷酸(dGMP)对环丙沙星三线态(³CPX^*)的影响, 通过对比实验证实了在环丙沙星光敏损伤dGMP中, 由于磷酸基团的存在, 导致了环丙沙星三线态吸收峰的改变, 从而改变了光敏损伤反应的途径. 通过研究发现, 光敏损伤途径的改变是由于dGMP结构上磷酸基团通过氢键与环丙沙星结合所造成的. 最后, 根据实验结果并对比Gua, dG和dGMP的结构, 提出了一个合理的磷酸基团的作用机理.