Spectroscopic and Binding Properties of Berberine to DNA and Its Application to DNA Detection

Berberine(BER) binds to the double helical DNA with a high affinity There is only a much smaller hypochromism and no shifts in the absorption spectra when BER binds to calf thymus DNA(CT DNA) The fluorescence yields increase dramatically when BER binds to DNA, with no shifts in the emission maximum. These spectral changes are in contrast to the behavior observed with many fluorescent intercalates Groove binding rather than intercalation was suggested to be the cause of these spectral changes. Consistent with groove binding, for polyamide anion quenching studies showed that the magnitude of K_sv of the bound BER was higher than that of the free BER. The addition of salt to the solution releases the DNA-bound drug action from the groove and causes a decrease in the fluorescence yield. The results of all above studies proved the groove binding of BER to DNA. The large fluorescence enhancements observed when BER binds to DNA and the poor fluorescence yield of BER in the absence of DNA can be used for sensitive detection of DNA The linear concentration range was 0–20μg/ml The limit of detection for CT DNA was 12 ng/ml     

Spectroscopic Characterization of the Interaction of Phenosafranin and Safranin O with Double Stranded, Heat Denatured and Single Stranded Calf Thymus DNA

Interaction of phenosafranin and safranin O with double stranded, heat denatured and single stranded calf thymus DNA has been studied by fluorescence, absorbance and circular dichroic techniques. Binding to the double stranded and heat denatured DNA conformations induced strong quenching in the fluorescence spectra of both dyes. Linear Scatchard plots indicated the binding to be of one type and the affinity evaluated to be of the order of 10(5) M(-1) with double stranded and heat denatured DNAs. Fluorescence quenching was much weaker with the single stranded DNA and the binding affinity was one order lower. Ferrocyanide quenching studies revealed that the fluorescence emission of the dye molecules bound to the double stranded and heat denatured DNAs was quenched much less compared to that bound to the single stranded DNA. Further, there was significant emission polarization for the bound dyes and strong energy transfer from the DNA base pairs to the dye molecules indicating intercalative binding. Salt dependence of the binding phenomenon revealed that electrostatic forces have significant role in the binding process. The intercalation of these molecules to double stranded and heat denatured DNA and simple stacking to single strands was proved by these fluorescence techniques. Support to the fluorescence results have been derived from absorption and circular dichroic results. Phenosafranin was revealed to be a stronger binding species compared to safranin O.     

Thionine Interaction to DNA: Comparative Spectroscopic Studies on Double Stranded Versus Single Stranded DNA

Interaction of thionine with double stranded and single stranded calf thymus DNA has been studied by absorbance, fluorescence, competition dialysis, circular dichroism and isothermal titration calorimetry. Binding to the native double stranded DNA conformation induced strong quenching in fluorescence spectrum of thionine. Linear Scatchard plots indicated the binding to be of one type and the affinity values evaluated to be of the order of 10⁵ M⁻¹ with double stranded DNA. Fluorescence quenching was much weaker with single stranded DNA and the binding affinity was about one order lower. Ferrocyanide quenching studies revealed that the fluorescence emission of dye molecules bound to the double stranded DNA was quenched much less compared to those bound to the single stranded DNA. Furthermore, there was significant emission polarization for the bound dye molecules and strong energy transfer from the DNA base pairs to the dye molecules indicating intercalative binding to ds DNA. Salt dependence of the binding phenomenon revealed that electrostatic forces played a significant role in the binding process. The intercalation of the dye molecules to double stranded DNA and simple stacking to single strands was proved from these fluorescence techniques. Support to the fluorescence results have been derived from absorption, circular dichroic and dialysis results. Calorimetric studies suggested that the binding to ds DNA conformation was both enthalpy and entropy favoured while that to ss DNA was predominantly entropy favoured.     

光谱法研究柔红霉素衍生物DNR-D3与DNA相互作用

在人体生理条件下(pH7.4),利用紫外光谱法和荧光光谱法研究了本实验室合成的柔红霉素衍生物DNR-D3与小牛胸腺DNA(ctDNA)的相互作用。实验发现,在ctDNA存在下DNR-D3的紫外吸收光谱发生减色效应且出现红移现象,这表明DNR-D3与ctDNA相互作用的结合方式以嵌插为主。通过20,30,37℃条件下ctDNA与DNR-D3相互作用的荧光光谱,判断ctDNA与DNR-D3之间荧光猝灭方式为静态猝灭。利用荧光数据计算不同温度下的结合常数,结合位点数及热力学参数,从而判断DNR-D3与ctDNA的作用方式以嵌插为主,作用力类型是以氢键和静电作用为主,此过程是放热的焓熵协同驱动过程。DNR-D3的荧光猝灭50%时DNR-D3与ctDNA的摩尔浓度比Rc=7/25,这表明DNR-D3的蒽环与ctDNA发生了强烈的嵌插作用,DNR-D3显示出了较强的抗癌活性。通过研究可知,DNR-D3有望成为抗癌活性候选药物。     

Interaction Between Methylene Blue and CalfThymus Deoxyribonucleic Acid by Spectroscopic Technologies

Characterization of the interaction between methylene blue (MB) and calf thymus deoxyribonucleic acid (ctDNA) was investigated by UV absorption spectra, fluorescence spectra, fluorescence polarization and fluorescence quenching experiments by ferrocyanide. The above results indicated that the binding modes of MB to ctDNA were relative to the molar ratio γ (γ=[DNA]/[MB]). At low γ ratios (γ < 4), remarkable hypochromic effect with no shift of λ_max in the absorption spectra of MB was observed in the presence of increasing amounts of ctDNA, the fluorescence of MB was efficiently quenched by the ctDNA bases and the fluorescence polarization of MB was slightly increased, which indicated that MB cations bound to phosphate groups of ctDNA by electrostatic interaction and then stacked on the surface of ctDNA helix. While at high γ ratios (γ > 6), besides the fluorescence of MB was quenched efficiently by the ctDNA bases, a red shift (about 3 nm) in the absorption spectra of MB was observed and the fluorescence polarization of MB was obviously increased, which indicated the intercalation binding that MB molecules were intercalated into the space of two neighbouring DNA base pairs was the preferred mode. Effects of K₄Fe(CN)₆ on the fluorescence quenching of the MB-ctDNA system at low and high γ ratios were also performed. The results showed that at γ = 1.7, the quenching effect by ferrocyanide was higher than that of pure MB, while at γ = 13.6 a decreased quenching of the fluorescence intensity was observed as compared with that of pure MB, which further proved the above conclusion. In addition, the mechanisms of the hypochromic effect and the fluorescence quenching were also discussed in detail.     

SPECTRAL STUDIES ON THE BINDING OF A BISACRIDINIUM DERIVATIVE LUCIGENIN WITH DOUBLE HELIX DNA

ABSTRACT

In this paper, the noncovalent binding of the cationic reagent lucigenin (LC) to DNA was investigated using spectroscopic methods. The results from absorption, circular dichroism and fluorescence studies demonstrated that LC could intercalate into the helix of DNA. Polarization and melting studies further supported the intercalation binding of LC with DNA. The binding constant was obtained by varying the DNA concentration, while keeping the concentration of LC constant. It was of the order of 10⁴ mol^?1 L in DNA base pairs. The experiment also showed that electrostatic interaction played a significant role in the intercalation of LC with DNA. It is supposed to be because of being attracted first by anionic DNA that LC can be intercalated into the interior of the DNA double helix. This research offers a new intercalation functional group to DNA-targeted drug design.     

荧光探针法研究百草枯与DNA的相互作用

以中性红（NR）为分子探针,应用紫外光谱法和荧光光谱法研究了除草剂百草枯（PQ）与小牛胸腺DNA（ctDNA）之间的相互作用。在pH7.3的Tris-HCl（5×10-2mol.L-1）缓冲溶液中,NR分子主要以嵌插方式结合到ctDNA双螺旋结构上,百草枯的加入抑制了NR与ctDNA之间的结合,用Stern-Volmer方程进行数据处理,表明百草枯对ctDNA-NR的荧光猝灭不是单纯的静态或动态猝灭方式,属于混合型的。综合紫外光谱、离子强度等研究证实,在该实验条件下,百草枯与DNA之间存在静电和嵌插两种作用。     

光谱法研究橙皮素与DNA分子间的相互作用机制

以盐酸小檗碱(BR)为荧光探针,研究了鲱鱼精DNA与橙皮素的相互作用.采用荧光光谱,紫外可见吸收光谱,盐效应,Scatchard方程等手段,探讨了橙皮素与DNA的作用机制.结果表明,在生理酸度(pH=7.4)下,橙皮素对DNA-BR体系的荧光有猝灭作用,猝灭类型为静态猝灭与动态猝灭共存的模式,其作用方式为嵌插和静电作用...     

两种卤代荧光素与DNA作用荧光特性的研究

对四溴荧光素(TBF)、四氯四溴荧光素(TTF)两种卤代荧光素与DNA作用的荧光特性进行了研究,结果表明：TBF和TTF的最大λ_ex/λ_em为518/540 nm和540/560 nm,DNA的存在会使TBF和TTF的荧光强度发生变化;荧光猝灭实验和偏振实验表明：TBF与DNA的作用方式可能是沟槽键合和嵌插作用,而TTF 嵌插在了DNA碱基对之间;盐效应实验表明：溶液离子强度的大小会影响TBF和TTF与DNA的作用;荧光法测得TBF和TTF与DNA的结合常数为1×106和2×106 L·mol-1,结合位点数为0.62和0.16。     

山姜素与脱氧核糖核酸的相互识别研究

应用荧光光谱法及紫外-可见光谱法研究了生理条件下(pH 7.4)山姜素(ALP)与DNA分子之间的相互识别。考察了不同温度下(25,32和39 ℃),DNA对山姜素荧光猝灭情况。实验发现, DNA能猝灭山姜素的内源性荧光,随着温度的升高,荧光猝灭常数K_SV逐渐减小(K_SV分别为3.288×103, 2.923×103和2.467×103 L·mol-1),并且DNA对山姜素的猝灭速率常数K_q要大于药物小分子与生物大分子之间的最大扩散所控制的碰撞猝灭常数,得出DNA对山姜素的荧光猝灭是单一的静态猝灭过程。DNA与山姜素相互作用紫外-可见光谱显示,DNA不能使得山姜素的吸收峰发生减色效应和红移现象,而山姜素也不能使溴化乙锭-DNA体系的荧光强度及最大荧光峰位置发生变化,即山姜素不和溴化乙锭竞争与DNA的结合位点。DNA热变性实验发现,解链DNA对山姜素的荧光猝灭程度要大于正常DNA的猝灭程度,由此推断山姜素与DNA不存在嵌插作用。同时,I-离子效应和盐效应表明,山姜素与DNA之间主要以沟槽模式相结合。     

Investigation of thionin-DNA interaction by satellite hole spectroscopy

The interactions of the two tautomers of thionin dye with DNA have been investigated by using satellite hole burning spectroscopy. Similar features in the absorption and satellite hole spectra of thionin in the presence of calf thymus (CT) DNA and polynucleotides [d(GC)₆]₂ (GC) suggested that thionin preferentially binds to GC rather than polynucleotides [d(AT)₆]₂ (AT). Different binding effects of the two tautomers to DNA could be observed. While the imino form fully intercalates into the DNA base pairs, the amino form is only partially intercalated. In addition, a broad hole associated with an antihole appeared in the presence of DNA, particularly in GC base pairs. The coincidence of the antihole with the absorption band of the amino form showed that the amino form is the photoproduct of the imino form. An increase in intensity of the broad hole and its antihole and the loss of nonresonant hole intensity upon interaction with CT DNA could be described by rapid ground state recovery resulting from fast charge transfer between the intercalated thionin and a guanine base quenching the internal conversion.     

Study on the spectral behavior of four fluorescent dyes and their interactions with nucleic acid by the luminescence method

The spectral characteristics of four fluorescent dyes: tetrabromofluorescein (TBF), tetrachlorotetrabromofluorescein (TTF), lissamine rhodamine RB 200 (LSR) and methylene violet (MV) were studied by fluorescence and paper substrate room temperature phosphorescence (PS-RTP) methods. The factors affected the luminescence were investigated including pH value, paper substrate and drying conditions, etc. The fluorescence polarizations and PS-RTP lifetimes of these compounds were obtained. The intensity of fluorescence and phosphorescence of TBF and TTF increased in the presence of DNA. Contrarily, that of LSR and MV decreased. The fluorescence quenching and polarization studies indicate that TTF, LSR and MV intercalate into DNA base pairs. In addition, the interaction of TBF with DNA is the comprehensive interaction of two modes: intercalation and groove binding. It was also found that ionic strength could affect the binding of fluorescent dyes and DNA.     

Synthesis,Characterization, DNA Binding Properties,Fluorescence Studies and Antioxidant Activity of Transition Metal Complexes with Hesperetin-2-hydroxy Benzoyl Hydrazone

A novel Schiff-base ligand (H₅L), hesperetin-2-hydroxy benzoyl hydrazone, and its copper (II), zinc (II) and nickel (II) complexes (M·H₃L) [M(II) = Cu, Zn, Ni], have been synthesized and characterized. The ligand and Zn (II) complex exhibit green and blue fluorescence under UV light and the fluorescent properties of the ligand and Zn (II) complex in solid state and different solutions were investigated. In addition, DNA binding properties of the ligand and its metal complexes have been investigated by electronic absorption spectroscopy, fluorescence spectra, ethidium bromide displacement experiments, iodide quenching experiments, salt effect and viscosity measurements. Results suggest that all the compounds bind to DNA via an intercalation binding mode. Furthermore, the antioxidant activity of the ligand and its metal complexes was determined by superoxide and hydroxyl radical scavenging methods in vitro. The metal complexes were found to possess potent antioxidant activity and be better than the free ligand alone and some standard antioxidants like vitamin C and mannitol.     

鬼臼酰肼镍(Ⅱ)金属配合物与DNA的相互作用

利用吸收光谱、荧光光谱、DNA热变性研究了鬼臼酰肼金属配合物与小牛胸腺DNA之间的相互作用。在金属配合物的存在下,DNA的紫外吸收光谱产生了明显的减色效应。实验结果表明,鬼臼酰肼金属配合物与DNA之间主要以嵌入方式相结合。     

Spectroscopic,Viscositic and Molecular Modeling Studies on the Interaction of 3′-Azido-Daunorubicin Thiosemicarbazone with DNA

A new daunorubicin has been synthesized and structurally characterized. The interaction of native calf thymus DNA (ctDNA) with 3′-azido-daunorubicin thiosemicarbazone (ADNRT) was investigated under simulated physiological conditions by multi-spectroscopic techniques, viscometric measurements and molecular modeling study. It concluded that ADNRT could intercalate into the base pairs of ctDNA, and the fluorescence quenching by ctDNA was static quenching type. Thermodynamic parameters calculated suggested that the binding of ADNRT to ctDNA was mainly driven by hydrophobic interactions. The relative viscosity of ctDNA increased with the addition of ADNRT, which confirmed the intercalation mode. Furthermore, molecular modeling studies corroborate the above experimental results.     

Pb2+对鱼肠DNA光谱特性的影响

利用紫外吸收光谱、荧光光谱、电泳手段研究了不同浓度Pb2+与鱼肠DNA的相互作用. 紫外吸收光谱测试表明 随着Pb2+的加入, DNA产生明显的减色效应, 同时DNA的207 nm峰发生明显蓝移; 荧光发射光谱结果表明, 随着Pb2+的加入, DNA荧光发射强度逐渐降低, Pb2+在DNA上的结合位点数为0.8个, Pb2+引起DNA的荧光猝灭属于静态猝灭, 结合位点的结合常数分别为6.08×104和2.82×104 L·mol-1; 电泳结果表明, 不同浓度的外源Pb2+处理未引起DNA的断裂. 认为外源Pb2+ 对DNA的构象有一定的破坏作用, 但并不引起DNA的断裂.     

染料木素及其葡萄糖苷与DNA相互作用的研究

在pH 7.2 Tris缓冲溶液中,采用紫外、荧光、粘度等方法研究了染料木素、染料木素葡萄糖苷、染料木素7,4’-二-O-β-D-葡萄糖苷与小牛胸腺ctDNA的作用。结果表明,在ctDNA存在下,染料木素及其葡萄糖苷的紫外吸收光谱的最大吸收峰均产生明显的减色效应。三种化合物的加入均能有效猝灭EB-DNA体系的荧光,而猝灭方式并不唯一。另外,ctDNA溶液的粘度也都随三种化合物的加入而增大。据此推断,染料木素及其葡萄糖苷与ctDNA之间具有较强的作用,可能以部分插入及氢键作用与ctDNA结合,其作用强弱顺序为染料木素葡萄糖苷>染料木素7,4’-二-O-β-D-葡萄糖苷>染料木素。结果提示染料木素的7位或4’位葡萄糖基化修饰有望作为抗癌活性候选物,值得进一步深入研究。     

Spectroscopic and Electrochemical Studies on the Interaction of Carmoisine Food Additive with Native Calf Thymus DNA

ABSTRACT

In this work, for the first time interaction between a carmoisine food additive and native calf thymus DNA was monitored using UV-Vis absorption, fluorescence, and circular dichroism (CD) spectroscopy, as well as cyclic voltammetry and viscosity measurements. It can be concluded that carmoisine could interact with DNA via a groove-binding mode as evidenced by a hyperchromic effect of absorption spectra, increases in the fluorescence quenching effect of DNA, certain induced CD spectral changes, and relatively small changes in the viscosity of DNA. The binding constants (K_b) for the carmoisine with DNA was estimated to be 6.2 × 10⁴ M^?1 through spectroscopic titrations. The cyclic voltammetry method showed that both anodic and cathodic peak currents of carmoisine decreased upon addition of the DNA. Circular dichroism spectra indicated that there are certain detectable conformational changes such as conversion from B-like to A-like in the DNA double helix when carmoisine was added.     

Elucidation of the Binding Properties of A Photosensitizer to Salmon Sperm DNA and Its Photobleaching Processes by Spectroscopic Methods

Methylene blue (MB) is a tricyclic heteroaromatic photosensitizer with a promising application in the photodynamic therapy (PDT) for anticancer treatment. The binding properties of MB to salmon sperm DNA have been investigated by the measurements of absorption spectra, quenching experiments and the photobleaching processes. Remarkable hypochromic and bathochromic effects of MB in the presence of increasing amounts of DNA have been observed in the absorption spectra. The quenching of MB by the DNA bases obeys the Stern-Volmer equation and ferrocyanide quenching of MB in the absence and presence of DNA is also measured as extended experiments. Results from the above spectral measurements are all consistent with the intercalative binding mode of MB to DNA with the K _b value of 5.6?×?10³?M^?1. The photobleaching processes of MB and its DNA complex have also been studied, which indicate that the photobleaching of MB and its DNA complex proceed with different mechanisms and the reactive oxygen species are responsible for the self-sensitized photooxidation of MB.     

荧光光谱分析家蝇幼虫抗菌肽与大肠杆菌染色体DNA作用机理

利用荧光光谱方法研究了家蝇幼虫抗菌肽MDL-1与大肠杆菌染色体DNA的相互作用,并以溴化乙锭为荧光探针,考察了抗菌肽MDL-1结合大肠杆菌DNA的作用方式,探讨其作用模式,即：抗菌肽MDL-1与大肠杆菌DNA骨架的磷酸基团通过静电引力结合,使抗菌肽MDL-1和DNA的空间结构都发生变化,抗菌肽MDL-1进一步与DNA双螺旋的沟槽结合,然后抗菌肽MDL-1以嵌入或部分嵌入方式与DNA相互作用,计算出抗菌肽MDL-1与DNA的结合常数和成键位点数。本试验从分子水平上研究抗菌肽与细菌DNA的作用模式和结构特征,对深入了解抗菌肽的作用机理极为重要。