基于氧化石墨烯作为传感平台的DNA电化学阻抗谱传感器制备

制备了一种基于氧化石墨烯作为传感平台的无标记DNA传感器。探针DNA通过π-π堆积作用固定到氧化石墨烯表面,电化学交流阻抗法作为传感表征及检测技术。当传感器识别目标DNA时,由于形成双链结构,双链DNA离开氧化石墨烯表面,进入溶液,使得电化学阻抗值减小。因此,可以利用杂化前后DNA传感器所展现出阻抗值的差异,实现对目标DNA的定量检测。结果表明:目标DNA浓度在1.0×10-8~1.0×10-12mol/L范围内,阻抗值变化与目标DNA浓度的对数呈线性关系,检出限为3.5×10-13mol/L(S/N=3)。此外,传感器能区分互补单碱基错配、完全错配的DNA序列。     

新型磁性纳米电化学DNA生物传感器的研究

利用高分子磁性纳米粒子有效地将磁性分离、富集和化学修饰电极的电化学检测相结合,构建以亚甲基蓝为嵌入式杂交指示剂的电化学DNA生物传感器.此传感器对碱基错配的序列有较好的选择性.传感器对目标序列的响应在1×10-13～1×10-6 mol/L范围内呈线性关系;检出限为4.3×10-14 mol/L.这种新型的高分子磁性纳米粒子电化学DNA生物传感器具有高的灵敏度,其线性范围宽,成本低,为DNA的痕量分析提供了一种新的思路.     

基于荧光小分子2-氨基-7-甲基-1,8-萘啶对C碱基的识别检测DNA双链中的C/C错配

单碱基错配是单核苷酸多态性(SNPs)的一种,是导致突变的DNA损伤类型之一.单碱基错配的检测对于从分子水平上阐明多种疾病形成的原因,实现基因水平的治疗都是至关重要的前提条件.发展具有高灵敏度、高选择性的单碱基错配检测方法势在必行.常用的单碱基错配检测方法包括凝胶电泳、荧光检测、SPR和质谱检测等.本文采用2-氨基-7-甲基-1,8-萘啶(AMND)作为荧光探针,AMND能嵌入双链DNA(ds-DNA)中的错配位点,并通过氢键识别错配碱基,这一结合过程伴随探针小分子的荧光淬灭,通过检测荧光淬灭现象实现单碱基错配及错配碱基类型的识别,建立了SNPs荧光分型方法.     

基于多壁碳纳米管和纳米金修饰电极测定特殊序列DNA的电化学生物传感器的制备

基于多壁碳纳米管和纳米金复合膜修饰电极制备了特殊序列的靶DNA的电化学生物传感器.该传感器以六氨基合钌为杂交指示剂,用差示脉冲伏安法进行检测DNA杂化,其响应信号与靶DNA浓度在1.0×10<'-12>～1.0×10<'-7>mol/L范围内呈线性关系,检测限达3.5×10<'-13>mol/L.该传感器能区分单碱基错配的靶DNA.     

基于纳米金胶标记DNA探针的电化学DNA传感器研究

以纳米金胶为标记物,将其标记于人工合成的5-端巯基修饰的寡聚核苷酸片段上,制成了具有电化学活性的金胶标记DNA电化学探针;在一定条件下,使其与固定在玻碳电极表面的靶序列进行杂交反应,利用ssDNA与其互补链杂交的高度序列选择性和极强的分子识别能力,以及纳米金胶的电化学活性,实现对特定序列DNA片段的电化学检测以及对DNA碱基突变的识别.     

水溶性碳纳米粒子的制备及其在DNA和单核苷酸多态性分析中的应用

利用电化学氧化的方法制备了水溶性好、粒径为7～12nm的碳纳米粒子,该碳纳米粒子通过π-π相互作用吸附荧光标记的单链DNA探针,并能有效地猝灭其荧光．当单链DNA探针与匹配的DNA目标分子杂交形成双链DNA时,猝灭的荧光被恢复,由此可以检测1-200nmol／L的DNA目标分子。此外,在碳纳米粒子存在时,由荧光标记的DNA探针和DNA目标分子形成的双链DNA的熔解温度可以简便地被测定,当双链DNA有错配碱基时,其熔解温度降低,由此可方便、快速地分析单核苷酸多态性．     

金属核酸酶及寡聚酰胺与双链DNA分子对接模式的理论研究

采用分子对接软件AutoDock分别研究了金属核酸酶、寡聚酰胺与DNA对接模式. 研究结果表明, 金属核酸酶、寡聚酰胺与DNA对接结果与实验数据吻合得较好. 在金属核酸酶与DNA的对接中, 最优构型都是金属核酸酶对接在DNA的小沟内. 随着中心金属上电荷的增加, 最大对接能呈现上升趋势. 尤其是配体体积较小的金属核酸酶, 最佳对接位点受中心金属上电荷影响较大, 即随着中心金属上电荷的从少到多, 最佳对接位点呈现多样化的趋势. 在柔性分子寡聚酰胺与双链DNA分子的对接中, 分子随DNA小沟的柔性变形是对接结合的关键. 其最佳的结合物位点也都是在DNA的小沟内, 其对接结果与晶体结构一致.     

血清样品中乙肝病毒的DNA电化学传感器检测

利用自组装单分子膜技术，将巯己基修饰的具有乙肝病毒(HBV)DNA序列特异性的单链DNA探针固定在金电极表面，制得DNA电化学传感器；以电活性的Hoechst 33258为指示剂，考察了该传感器对血清样品中乙肝病毒DNA的响应；探讨DNA电化学传感器在临床检测中的应用；将传感器法与荧光聚合酶链反应(PCR)法进行对比，两者的分析结果具有一致性。     

基于锁核酸探针的传感器用于BCR/ABL融合基因检测的研究

基于慢性粒细胞白血病中BCR/ABL融合基因的碱基序列,设计了一种新型发夹结构锁核酸(locked nucleic acids, LNA)探针,把LNA探针通过Au-s键固定在金电极表面构建了特异的生物传感器.LNA探针与目标链DNA杂交,以自行合成的苯甲酸二聚铜配合物([Cu2(C7H5O2)4(C2H6O)2], 简称[Cu(R)2]2+)为杂交指示剂,应用差示脉冲伏安法进行检测,表现出良好的响应信号.该新型锁核酸传感器能较好的区分完全互补链DNA、单碱基错配链DNA.对互补链DNA检测的线性范围为1.0×10-8～1.0×10-6 mol•L-1,检出限为2.0×10-9 mol•L-1.     

氧化锆/聚中性红电化学DNA传感器用于转基因植物CaMV35S启动子基因序列的测定

制备了基于氧化锆(ZrO2)/聚中性红(PNR)修饰电极的电化学DNA传感器。探针DNA通过磷酸基和ZrO2的相互作用组装到电极表面。原子力显微镜(AFM)和电化学方法用于电极的表征。PNR在DNA杂交前后峰电流的变化作为杂交信号,用示差脉冲伏安法对转基因植物CaMV35S启动子基因片段进行测定。结果表明:探针DNA和完全互补的DNA片段杂交后,杂交信号明显变小,峰电流的变化值与其浓度的对数在1.0×10-11~1.0×10-8mol/L范围内呈良好的线性关系,检出限为3.46×10-12mol/L(S/N=3)。此外,传感器能区分互补、单碱基错配、完全错配的DNA序列,已用于样品的测定。     

Towards the optimization of an optical DNA sensor: control of selectivity coefficients and relative surface affinities

Short single-stranded DNA (ssDNA) oligonucleotides can be grown on the surface of fused silica by automated nucleic acid synthesis. The immobilized ssDNA can be deposited at a desired average density. The density of ssDNA provides a controlled parameter that in combination with temperature, ionic strength and pH, can be used to define the selectivity of hybridization. Furthermore, the density of ssDNA can be used to control the affinity of complementary DNA so that it associates with the nucleic acids on the surface rather than areas that are not coated with ssDNA. The characteristic melt temperature observed for immobilized double-stranded DNA (dsDNA) 20mer shifts by up to 10 °C when a single base pair mismatch is present in the center of a target oligonucleotide. Optimization of quantitative analysis of such single base pair mismatches requires use of select experimental conditions to maximize the formation of the fully matched target duplex while minimizing the formation of the mismatched duplex. Results based on fiber optic biosensors that are used to study binding of fluorescein-labeled complementary DNA demonstrate that it is possible to achieve a selectivity coefficient of fully matched to single base pair mismatch of approximately 85-1, while maintaining >55% of the maximum possible signal that can be obtained from the fully matched target duplex.     

Robust charge transport in DNA double crossover assemblies

BACKGROUND: Multiple-stranded DNA assemblies, encoded by sequence, have been constructed in an effort to self-assemble nanodevices of defined molecular architecture. Double-helical DNA has been probed also as a molecular medium for charge transport. Conductivity studies suggest that DNA displays semiconductor properties, whereas biochemical studies have shown that oxidative damage to B-DNA at the 5'-G of a 5'-GG-3' doublet can occur by charge transport through DNA up to 20 nm from a photo-excited metallointercalator. The possible application of DNA assemblies, in particular double crossover (DX) molecules, in electrical nanodevices prompted the design of a DNA DX assembly with oxidatively sensitive guanine moieties and a tethered rhodium photo-oxidant strategically placed to probe charge transport. RESULTS: DX assemblies support long-range charge transport selectively down the base stack bearing the intercalated photo-oxidant. Despite tight packing, no electron transfer (ET) crossover to the adjacent base stack is observed. Moreover, the base stack of a DX assembly is well-coupled and less susceptible than duplex DNA to stacking perturbations. Introducing a double mismatch along the path for charge transport entirely disrupts long-range ET in duplex DNA, but only marginally decreases it in the analogous stack within DX molecules. CONCLUSIONS: The path for charge transport in a DX DNA assembly is determined directly by base stacking. As a result, the two closely packed stacks within this assembly are electronically insulated from one another. Therefore, DX DNA assemblies may serve as robust, insulated conduits for charge transport in nanoscale devices.     

SNPs Feasibility of Nonlabeled Oligonucletides on Using Electrochemical Sensing

We have demonstrated an electrochemical gene chip protocol for the SNPs detection of nonlabeled DNA. Using an array consisting of streptavidin‐modified gold electrodes, probe DNA were attached through the application of a direct electric field. Electrochemical response changes originating from the hybridization of nucleic acids to protein‐bound nucleic acids using soluble mediators in K₃Fe(CN)₆ solution could then be observed. The electrochemical protocol developed showed high sensitivity and good reproducibility in the detection of DNA hybridization. Significant changes in electrochemical signals were also observed when using target DNA with a single base mismatch, indicating the applicability of this method to single nucleotide polymorphisms (SNPs) detection.     

Electrochemical Detection of DNA Melting Curves by Means of Heated Biosensors

This article reports about the detection of DNA melting curves at heated electrochemical biosensors. Osmium tetroxide‐bipyridine‐labeled target oligonucleotides are hybridized with probe oligonucleotides immobilized on gold electrodes. Then, the gold electrode is successively heated in order to measure a complete melting curve consisting of alternating current voltammetric signals. Melting temperatures ?_m, determined at various ionic strengths and in dependence on different numbers of base pair mismatches, have been compared with those obtained by means of UV spectrophotometry. The proposed method holds great promise for the fast and easy parallel detection of nucleic acids sequences on selectively heated electrode arrays. A stringent hybridization temperature can be easily adjusted in order to discriminate base pair mismatches.     

DNA electrochemistry through the base pairs not the sugar-phosphate backbone

Using intercalated, covalently bound daunomycin as a redox probe, ground state charge transport in DNA films with a perturbation in base pair stacking was examined in comparison with breaks in the sugar-phosphate backbone. While the introduction of one or even two nicks in the sugar-phosphate backbone yields no detectable effect on electron transfer, a CA mismatch significantly attenuates the electron transfer yield. These results confirm that the base pair stack is the pathway for DNA-mediated charge transfer, not the sugar-phosphate backbone.     

Coupling Electrochemical Adsorption and Long‐range Electron Transfer: Label‐free DNA Mismatch Detection with Ultramicroelectrode (UME)

A new electrochemical hybridization transduction pathway, obtained by coupling electrochemical adsorption and long‐range electron transfer through double‐stranded DNA, was investigated using ultramicroelectrode (UME). The results show that long‐range electron transfer does not occurs exclusively throws well‐packed and organized self‐assembled DNA monolayers. This approach is used to investigate long‐range electron transfer properties of both single‐ and double‐ stranded short synthetic DNA and DNA plasmids. Single mismatch electrochemical detection protocol of non‐labelled short synthetic DNA, without heating or probe labelling, in a 10 minutes protocol, was in fine performed.     

Rapid radical formation by DNA charge transport through sequences lacking intervening guanines

Using the flash-quench technique to probe DNA charge transport in assemblies containing a tethered ruthenium intercalator, the kinetics and yield of methylindole radical formation as a function of DNA sequence were studied by laser spectroscopy and biochemical methods. In these assemblies, the methylindole moiety serves as an artificial base of low oxidation potential. Hole injection and subsequent formation of the methylindole radical cation were observed at a distance of over 30 A at rates >/=107 s-1 in assemblies containing no guanine bases intervening the ruthenium intercalator and GMG oxidation site. Radical yield was, however, strikingly sensitive to an intervening base mismatch; no significant methylindole radical formation was evident with an intervening AA mismatch. Also critical is the sequence at the injection site; this sequence determines initial hole localization and hence the probability of hole propagation. With guanine rather than inosine near the site of hole injection, decreased yields of radicals and long-range oxidative damage are observed. The presence of the low-energy guanine site in this case serves to localize the hole and therefore diminish charge transport through the base pair stack.     

DNA electrochemistry with tethered methylene blue

Methylene blue (MB'), covalently attached to DNA through a flexible C(12) alkyl linker, provides a sensitive redox reporter in DNA electrochemistry measurements. Tethered, intercalated MB' is reduced through DNA-mediated charge transport; the incorporation of a single base mismatch at position 3, 10, or 14 of a 17-mer causes an attenuation of the signal to 62 ± 3% of the well-matched DNA, irrespective of position in the duplex. The redox signal intensity for MB'-DNA is found to be least 3-fold larger than that of Nile blue (NB)-DNA, indicating that MB' is even more strongly coupled to the π-stack. The signal attenuation due to an intervening mismatch does, however, depend on DNA film density and the backfilling agent used to passivate the surface. These results highlight two mechanisms for reduction of MB' on the DNA-modified electrode: reduction mediated by the DNA base pair stack and direct surface reduction of MB' at the electrode. These two mechanisms are distinguished by their rates of electron transfer that differ by 20-fold. The extent of direct reduction at the surface can be controlled by assembly and buffer conditions.     

电化学DNA生物传感器*

对特异DNA序列的检测在基因相关疾病的诊断、军事反恐和环境监测等方面均具有非常重要的意义,DNA传感器的研究就是为了满足对特异DNA序列的快速、便捷、高灵敏度和高选择性检测的需要。近年来涌现出了多种传感策略,根据检测方法的不同可以大致分为光学传感器、电化学传感器、声学传感器等。由于电化学检测方法本身所具有的灵敏、快速、低成本和低能耗等特点,电化学DNA传感器已成为一个非常活跃的研究领域并在近几年中得到了快速发展。本文概括了近年来在DNA传感器的重要分支——电化学DNA传感器领域内的一些重要进展,主要包括DNA探针在传感界面上的固定方法和各种电化学DNA杂交信号的检测方法。     

In situ scanning tunneling microscopy of DNA-modified gold surfaces: bias and mismatch dependence

In situ scanning tunneling microscopy has been performed on DNA-modified gold surfaces under physiological conditions. The STM images of DNA-modified gold surfaces are strongly dependent on the applied potential and percentage of DNA duplexes containing a single base mismatch. At negative surface potentials we observe reproducible features that are attributed to DNA agglomerates where the DNA duplexes are in the upright orientation; at positive potentials, when DNA molecules lie down on the surface, the film is transparent, and only the gold surface is distinguishable. These observations indicate that DNA possesses a non-negligible local density of states which can be probed when the DNA duplex is in the upright orientation. By varying the percentage of DNA duplexes containing a single base mismatch, we have observed a dramatic change in the image contrast as a result of the perturbation induced by the mismatch on the electronic pathway inside the DNA. These results emphasize the central role of the integrity of the pi-stack for DNA charge transport. Duplex DNA is a promising candidate in molecular electronics, but only in arrangements where the orbitals can efficiently overlap with the electronic states of the electrodes and the environment does not constrain the DNA in non-native, poorly stacked conformations.