Oligonucleotide stabilized silver nanoclusters as fluorescence probe for drug-DNA interaction investigation

In this work, oligonucleotide stabilized silver nanoclusters as novel fluorescent probes were successfully utilized for the drug–DNA interaction study. Silver nanoclusters were proved to be sensitive probes for the drugs investigated (including of two kinds of intercalators, daunorubicin and quinacrine, as well as a non-intercalating binder bisBenzimide H 33258), as the detection limits at 10⁻⁸ mol L⁻¹ level of studied drugs can be achieved. The interactions of drugs and calf thymus DNA were investigated using non-linear fit analysis, and the binding constants as well as binding site sizes were obtained. As biocompatible materials, silver nanoclusters are promising in the chemical especially biochemical analysis fields.     

Cyclohexyl "base pairs" stabilize duplexes and intensify pyrene fluorescence by shielding it from natural base pairs

In this study, we investigated the stability and structure of artificial base pairs that contain cyclohexyl rings. The introduction of a single pair of isopropylcyclohexanes into the middle of DNA slightly destabilized the duplex. Interestingly, as the number of the "base pairs" increased, the duplex was remarkably stabilized. A duplex with six base pairs was even more stable than one containing six A-T pairs. Thermodynamic analysis revealed that changes in entropy and not enthalpy contributed to duplex stability, demonstrating that hydrophobic interactions between isopropyl groups facilitated the base pairing, and thus stabilized the duplex. NOESY of a duplex containing an isopropylcyclohexane-methylcyclohexane pair unambiguously demonstrated its "pairing" in the duplex because distinct NOEs between the protons of cyclohexyl moieties and imino protons of both of the neighboring natural base pairs were observed. CD spectra of duplexes tethering cyclohexyl moieties also showed a positive-negative couplet that is characteristic of the B-form DNA duplex. Taken together, these results showed that cyclohexyl moieties formed base pairs in the DNA duplex without severely disturbing the helical structure of natural DNA. Next, we introduced cyclohexyl base pairs between pyrene and nucleobases as an "insulator" that suppresses electron transfer between them. We found a massive increase in the quantum yield of pyrene due to the efficient shielding of pyrene from nucleobases. The cyclohexyl base pairs reported here have the potential to prepare highly fluorescent labeling agents by multiplying fluorophores and insulators alternately into DNA duplexes.     

Electrochemical detection of DNA hybridization based on DNA-templated assembly of silver cluster

The growth of metals on DNA templates has generated considerable interest in connection to the design of metallic nanostructures. Here we exploit the DNA-induced generation of metal clusters for developing an electrical biosensing protocol. The new hybridization assay employs a probe-modified gold surface, and is based on the electrostatic ‘collection’ of silver cations along the DNA duplex, the reductive formation of silver nanoclusters along the DNA backbone, dissolution of the silver aggregate and stripping potentiometric detection of the dissolved silver at a thick-film carbon electrode. The new protocol thus combines the inherent signal amplification of stripping analysis with effective discrimination against nonhybridized DNA.     

Synthesis and characterization of colloidal fluorescent silver nanoclusters

Ultrasmall water-soluble silver nanoclusters are synthesized, and their properties are investigated. The silver nanoclusters have high colloidal stability and show fluorescence in the red. This demonstrates that like gold nanoclusters also silver nanoclusters can be fluorescent.     

Site-specific DNA-programmed growth of fluorescent and functional silver nanoclusters

Precise organization of metallic nanoclusters on DNA scaffolds holds great interest for nanopatterned materials that may find uses in electronics, sensors, medicine, and many other fields. Herein, we report the site-specific growth of fluorescent silver nanoclusters by using a mismatched double-stranded DNA template. Few-atom, molecular-scale Ag clusters are found to localize at the mismatched site and the metallized DNA retains its integrity. The DNA-encapsulated nanoclusters can be utilized as functional biological probes to identify single-nucleotide polymorphisms by taking advantage of the very bright fluorescence and excellent photostability of the nanoclusters. This approach offers the possibility of constructing novel DNA-based nanomaterials and nanomechanical devices with more sophisticated functions and will be highly beneficial in future biochemical, pharmaceutical, nanomechanical, and electronic applications.     

Complexation and chemical transformations in the ternary system silver-carbon tetrachloride-mesogenic cyanobiphenyl at low temperatures

The possibility of cryoformation and chemical transformations of new metallomesogenic complexes, exemplified by co-condensates of silver with carbon tetrachloride in the matrix of mesogenic 4-n-pentyl-4′-cyanobiphenyl, has been studied by EPR. Four types of paramagnetic products were detected in this system at low temperatures: biligand π-complexes of silver atoms with cyanobiphenyl molecules; σ-complexes of silver atoms with the cyanobiphenyl molecule stabilized by an additional electron acceptor ligand CCl₄; trichloromethyl radical adducts of silver chloride — AgCl·CCl ₃ ^? and silver nanoclusters formed as a result of aggregation of silver atoms. Thermal stability of these particles was examined and a possible mechanism of their chemical transformations was proposed.     

Pyrrolo‐dC Metal‐Mediated Base Pairs in the Reverse Watson–Crick Double Helix: Enhanced Stability of Parallel DNA and Impact of 6‐Pyridinyl Residues on Fluorescence and Silver‐Ion Binding

Reverse Watson–Crick DNA with parallel‐strand orientation (ps DNA) has been constructed. Pyrrolo‐dC (PyrdC) nucleosides with phenyl and pyridinyl residues linked to the 6 position of the pyrrolo[2,3‐d]pyrimidine base have been incorporated in 12‐ and 25‐mer oligonucleotide duplexes and utilized as silver‐ion binding sites. Thermal‐stability studies on the parallel DNA strands demonstrated extremely strong silver‐ion binding and strongly enhanced duplex stability. Stoichiometric UV and fluorescence titration experiments verified that a single ^2pyPyrdC–^2pyPyrdC pair captures two silver ions in ps DNA. A structure for the PyrdC silver‐ion base pair that aligns 7‐deazapurine bases head‐to‐tail instead of head‐to‐head, as suggested for canonical DNA, is proposed. The silver DNA double helix represents the first example of a ps DNA structure built up of bidentate and tridentate reverse Watson–Crick base pairs stabilized by a dinuclear silver‐mediated PyrdC pair.     

Distinct conformations of DNA-stabilized fluorescent silver nanoclusters revealed by electrophoretic mobility and diffusivity measurements

Silver-DNA nanoclusters (Ag:DNAs) are novel fluorophores under active research and development as alternative biomolecular markers. Comprised of a few-atom Ag cluster that is stabilized in water by binding to a strand of DNA, they are also interesting for fundamental explorations into the properties of metal molecules. Here, we use in situ calibrated electrokinetic microfluidics and fluorescence correlation spectroscopy to determine the size, charge, and conformation of a select set of Ag:DNAs. Among them is a pair of spectrally distinct Ag:DNAs stabilized by the same DNA sequence, for which it is known that the silver cluster differs by two atoms. We find these two Ag:DNAs differ in size by ～30%, even though their molecular weights differ by less than 3%. Thus a single DNA sequence can adopt very different conformations when binding slightly different Ag clusters. By comparing spectrally identical Ag:DNAs that differ in sequence, we show that the more compact conformation is insensitive to the native DNA secondary structure. These results demonstrate electrokinetic microfluidics as a practical tool for characterizing Ag:DNA.     

DNA-templated fluorescent silver nanoclusters

In this review, we discuss the synthesis and applications of DNA-templated fluorescent silver nanoclusters in aqueous solution. Various oligonucleotide sequences or conformations have been utilized to synthesize silver nanoclusters with excellent fluorescence properties. The range of applications has expanded greatly, from live cell staining and the detection of metal ions and small biomolecules to the detection of DNA or proteins.     

Formation and Structure of Fluorescent Silver Nanoclusters at Interfacial Binding Sites Facilitating Oligomerization of DNA Hairpins

Fluorescent, DNA‐stabilized silver nanoclusters (DNA‐AgNCs) are applied in a range of applications within nanoscience and nanotechnology. However, their diverse optical properties, mechanism of formation, and aspects of their composition remain unexplored, making the rational design of nanocluster probes challenging. Herein, a synthetic procedure is described for obtaining a high yield of emissive DNA‐AgNCs with a C‐loop hairpin DNA sequence, with subsequent purification by size‐exclusion chromatography (SEC). Through a combination of optical spectroscopy, gel electrophoresis, inductively coupled plasma mass spectrometry (ICP‐MS), and small‐angle X‐ray scattering (SAXS) in conjunction with the systematic study of various DNA sequences, the low‐resolution structure and mechanism of the formation of AgNCs were investigated. Data indicate that fluorescent DNA‐AgNCs self‐assemble by a head‐to‐head binding of two DNA hairpins, bridged by a silver nanocluster, resulting in the modelling of a dimeric structure harboring an Ag₁₂ cluster.     

Peptide‐Stabilized,Fluorescent Silver Nanoclusters: Solid‐Phase Synthesis and Screening

Few‐atom silver nanoclusters (AgNCs) can exhibit strong fluorescence; however, they require ligands to prevent aggregation into larger nanoparticles. Fluorescent AgNCs in biopolymer scaffolds have so far mainly been synthesized in solution, and peptides have only found limited use compared to DNA. Herein, we demonstrate how solid‐phase methods can increase throughput dramatically in peptide ligand screening and in initial evaluation of fluorescence intensity and chemical stability of peptide‐stabilized AgNCs (P‐AgNCs). 9‐Fluorenylmethyloxycarbonyl (Fmoc) solid‐phase peptide synthesis on a hydroxymethyl‐benzoic acid (HMBA) polyethylene glycol polyacrylamide copolymer (PEGA) resin enabled on‐resin screening and evaluation of a peptide library, leading to identification of novel peptide‐stabilized, fluorescent AgNCs. Using systematic amino acid substitutions, we synthesized and screened a 144‐member library. This allowed us to evaluate the effect of length, charge, and Cys content in peptides used as ligands for AgNC stabilization. The results of this study will enable future spectroscopic studies of these peptide‐stabilized AgNCs for bioimaging and other applications.     

Mass-spectrometric study of the formation of silver nanoclusters in polyether media: 2. Fast atom bombardment and modeling

Within the problem of the synthesis of silver nanoclusters and nanoparticles in polyether media, systems containing silver nitrate AgNO₃ and low-molecular-weight polyethers, poly(ethylene glycol) PEG-400 or oxyethylated glycerol OEG-5, were studied by fast atom bombardment (FAB) mass spectrometry. The formation of stable clusters of polyether oligomers (M _m ) with silver cations M _m · Ag⁺ was shown, in agreement with the previous data of laser desorption/ionization. Quantum-chemical DFT calculations have shown that the M _m · Ag⁺ clusters are stabilized by wrapping of the polyether chain around the silver cation with the cation coordinating ether oxygen atoms. Silver nanoclusters were not found in the FAB mass spectra of liquid systems, but Ag _n ⁺ clusters were detected for silver nanoparticles separated from the reaction medium. No products of chemical transformations of PEG-400 or OEG-5 were observed by FAB. A plausible mechanism of the reduction of silver cations involving nitrate anions is discussed.     

The determination of copper ions based on sensitized chemiluminescence of silver nanoclusters

We report on the first application of novel, water-soluble and fluorescent silver nanoclusters (Ag NCs) in a chemiluminescent (CL) detection system. A method has been developed for the determination of copper(II) ion that is based on the fact that the weak CL resulting from the redox reaction between Ce(IV) ion and sulfite ion is strongly enhanced by the Ag NCs and that the main CL signals now originate from Ag NCs. UV-visible spectra, CL spectra and fluorescent (FL) spectra were acquired to investigate the enhanced CL mechanism. It is proposed that the electronic energy of the excited state intermediate SO₂* that originates from the CL reaction is transferred to Ag NCs to form an electronically excited NC whose emission is observed. In addition, it is found that copper(II) is capable of inhibiting the CL of the nanoclusters system, but not if other common metal ions are present. The detection of copper(II) is achieved indirectly by measuring the CL intensity of Ag NCs. Under the optimized experimental conditions, a linear relationship does exist between the intensity of CL and the concentrations of copper(II) in the range of 0.2?nM to 0.1?m??. The detection limit is 0.12?nM. The method is applied to the determination of copper(II) ion in tap water with satisfactory results.

Pre‐Incubation of Auric Acid with DNA Is Unnecessary for the Formation of DNA‐Templated Gold Nanoclusters

The rationale for the preparation of DNA‐templated gold nanoclusters (DNA‐Au NCs) has not been well understood, thereby slowing down the advancement of the synthesis and applications of DNA‐Au NCs. The interaction between metal ions and the DNA template seems to be the key factor for the successful preparation of DNA‐templated metal nanoclusters. With the help of circular dichroism in this contribution, we put efforts into interrogating the necessity of pre‐incubation of HAuCl₄ with poly‐adenine template in the formation of Au NCs by citrate reduction. Our results revealed that the pre‐incubation of HAuCl₄ with poly‐adenine is not favorable for the formation of Au NCs, which is distinctly different from the formation process for silver nanoclusters. It is our hope that this study can provide guidance in the preparation of Au NCs with more DNA templates.     

紫外光辐照下以PAMAM树形分子为模板制备Ag纳米簇及光致发光性能研究

以G5.0-OH PAMAM树形分子为模板,用紫外光辐照法制备银纳米簇.用透射电子显微镜、紫外-可见吸收光谱和共振散射光谱等对所制备的银纳米簇进行了表征.结果表明:用紫外光辐照法可以制备尺寸分布均匀、稳定的银纳米簇;且辐照时间、PAMAM树形分子的浓度及Ag⁺/PAMAM树形分子的摩尔比都会对所制备的银纳米簇产生较大的影响.由于所制备的银纳米簇的粒径小于树形分子的流体力学半径,表明树形分子起到了“内模板”作用.同时研究了银纳米簇的尺寸对其光致发光性能的影响,发现通过调节银纳米簇的尺寸可实现其光致发光的可调性.     

Sensitive signal-on fluorescent sensing for copper ions based on the polyethyleneimine-capped silver nanoclusters–cysteine system

In this work, we present a label-free sensor for copper ions. This sensor is composed of silver nanoclusters and cysteine. The fluorescence of the silver nanoclusters was quenched by cysteine, which was recovered in the presence of copper ions. This binding of silver nanoclusters to cysteine promoted agglomeration of silver nanoclusters to yield larger non-fluorescent silver nanoparticles. The presence of copper ions resulted in the oxidation of cysteine to form a disulfide compound, leading to recovery of fluorescence of the silver nanoclusters. The fluorescence of the silver nanoclusters in the presence of cysteine increased with increasing concentration of copper ions in the range of 10–200 nM. The detection limit of this sensor for copper ions was 2.3 nM. The silver nanoclusters–cysteine sensor provides a simple, cost-effective, and sensitive platform for the detection of copper ions.     

富含胞嘧啶单链DNA-银纳米簇荧光探针用于S1核酸酶的灵敏检测

以富含胞嘧啶（C）的单链DNA为模板合成银纳米簇,将其作为功能化探针,建立了一种无标记荧光检测S1核酸酶的方法.S1核酸酶可以特异性识别单链DNA,在最适的酶催化反应条件下,可将其降解为单核苷酸或寡核苷酸片段.当S1核酸酶不存在时,富含C的单链DNA可以有效地合成荧光银纳米簇;当S1核酸酶存在时,单链DNA模板被特异性识别并降解,导致无法形成银纳米簇,使体系荧光信号降低.实验结果表明,银纳米簇的荧光强度随着S1核酸酶浓度的增加而降低.在优化的条件下,体系荧光信号（F/F₀）与S1核酸酶的浓度在5.0×10^-5~4.0×10^-3 U/μL范围内呈线性关系,检出限为2.0×10^-6 U/μL.该荧光探针选择性好,可用于RPMI 1640细胞培养基中S1核酸酶的检测,回收率达到91.8%~109.5%.     

Impact of a conformationally restricted receptor on the BF2 chelated azadipyrromethene fluorosensing platform

Conformational control of the receptor-fluorophore orientation of BF2 chelated azadipyrromethene sensors reveals two photophysically different modes of analyte triggered fluorescence switching both of which exhibit large off-on fluorescence intensity responses to the light input-output of the sensors in the visible red spectral region.     

DNA/银纳米簇在分析检测中的应用

银纳米簇(AgNCs)为几个到数十个原子所组成的聚集体,核尺寸小于2 nm,具有优异的物理化学性质,常以聚合物、蛋白质、DNA等作为模板采用化学合成法制备,其中以DNA为模板合成的AgNCs(DNA/AgNCs)是一种新型的发光纳米材料,其突出的荧光特性和良好的生物相容性,被应用于纳米传感器、细胞标记与检测等多种分析领...     

pH调控的变色酸2R稳定的银纳米簇的合成

银纳米簇(Ag NCs)具有特殊的物理和化学性质,其具有广泛的应用前景和研究价值。 本文探索了以变色酸2R为稳定剂,经过两次pH调节构建一种快速制备具有强荧光特性、稳定存在且粒径小的Ag NCs的方法。 在最优实验条件下,运用该方法制备得到的Ag NCs的最大发射波长为450 nm,最大激发波长为336 nm,平均粒径为1.74 nm,主要粒经分布在0.68~2.99 nm区域内,该Ag NCs的晶格间距为0.223 nm,晶格类型为(102)。 该Ag NCs可作为探针应用于溶液中微量重金属离子和非金属离子的测定,小分子、弱酸溶液浓度等方面的检测,也可以用于细胞成像等方面。