Design of a dual-output fluorescent DNA logic gate and detection of silver ions and cysteine based on graphene oxide

In the presence of graphene oxide, upon formation of cytosine-Ag-cytosine the fluorescence wavelength of FAM-labeled DNA exhibited a red shift, and its intensity significantly increased. A novel fluorescent DNA sensor for Ag(+) and cysteine detection, and a dual-output fluorescent DNA INHIBIT logic gate are designed.     

A reversible fluorescent DNA logic gate based on graphene oxide and its application for iodide sensing

A simple and reliable fluorescent DNA logic gate is developed by utilizing graphene oxide as a signal transducer and mercury ions and iodide as mechanical activators.     

Ratiometry of monomer/excimer emissions of dipyrenyl thiacalix[4]arene for Cu detection: a potential Cu and K switched INHIBIT logic gate with NOT and YES logic functions

A new thiacalix[4]arene derivative 2 of 1,3-alternate conformation possessing two pyrene groups has been synthesized and examined for its cation recognition abilities towards different cations such as lithium, sodium, potassium, nickel, zinc, cadmium, silver, mercury, lead and copper by fluorescence spectroscopy. In CH₃CN/CH₂Cl₂ (1:1), the presence of Cu(II) induces the formation of a 1:2 ligand/metal complex, which exhibits increasing monomer emission at 376 nm at the expense of the fluorescent excimer emission of 2 centered at 476 nm. In the presence of K⁺, the intensity of the excimer emission increases along with the formation of a new blue shifted band at 435 nm which corresponds to a static dimer. The compound behaves as a fluorescent molecular switch upon chemical input of Cu²⁺ and K⁺.     

Phosphorescent iridium(III) complex with an N^O ligand as a Hg(2+)-selective chemodosimeter and logic gate

Phosphorescent iridium(III) complexes have been attracting increasing attention in applications as luminescent chemosensors. However, no instance of an iridium(III) complex being used as a molecular logic gate has hitherto been reported. In the present study, two iridium(III) complexes, [Ir(ppy)(2)(PBT)] and [Ir(ppy)(2)(PBO)], have been synthesized (PBT, 2-(2-Hydroxyphenyl)-benzothiazole; PBO, 2-(2-hydroxyphenyl)-benzoxazole), and their chemical structures have been characterized by single-crystal X-ray analysis. Theoretical calculations and detailed studies of the photophysical and electrochemical properties of these two complexes have shown that the N^O ligands dominate their luminescence emission properties. Moreover, [Ir(ppy)(2)(PBT)], containing a sulfur atom in the N^O ligand, can serve as a highly selective chemodosimeter for Hg(2+) with ratiometric and naked-eye detection, which is associated with the dissociation of the N^O ligand PBT from the complex. Furthermore, complex [Ir(ppy)(2)(PBT)] has been further developed as an AND and INHIBIT logic gate with Hg(2+) and histidine as inputs.     

Lineal DNA logic gate for microRNA diagnostics with strand displacement and fluorescence resonance energy transfer

Designing molecular logic gates to operate programmably for molecular diagnostics in molecular computing still remains challenging. Here, we designed a novel linear DNA logic gates for microRNA analysis based on strand displacement and fluorescence resonance energy transfer (FRET). Two labeled strands closed each other produce to FRET through hybridization with a complementary strand to form a basic work unit of logic gate. Two indicators of heart failure (microRNA-195 and microRNA-21) were selected as the logic inputs and the fluorescence mode was used as the logic output. We have demonstrated that the molecular logic gate mechanism worked well with the construction of YES and AND gates.     

Characteristic of the Ag(bipy) 2 2+ /Ag(bipy) 2 + and Ag(phen) 2 2+ /Ag(phen) 2 + systems in acetonitrile

The values of standard potentials of redox systems formed by the complexes of Ag(II) and Ag(I) with 2,2-bipyridine and 1,10-phenanthroline in acetonitrile have been determined. The properties of the above systems in water and acetonitrile are compared. The possibility of application of these systems for the construction of electrodes with a constant potential in different solvents is discussed.

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Charakteristik der Systeme Ag(bipy) ₂ ²⁺ /Ag(bipy) ₂ ⁺ und Ag(phen) ₂ ²⁺ /Ag(phen) ₂ ⁺ in Acetonitril

Zusammenfassung Die Standardpotentialwerte der Redoxsysteme, die durch Komplexbildung von Ag(II)- und Ag(I)-Ionen mit 2,2-Bipyridin und 1,10-Phenantrolin gebildet werden, wurden in Acetonitril bestimmt. Die Eigenschaften dieser Redoxsysteme in Wasser und Acetonitril wurden verglichen.Es wurde weiterhin die Möglichkeit der Anwendung dieser Systeme zur Konstruktion einer Elektrode mit unveränderbarem Potential in verschiedenen Lösungsmitteln diskutiert.

     

Interaction of (G4)2 and (X4)2 DNA quadruplexes with Cu+, Ag+ and Au+ metal cations: a quantum chemical calculation on structural,energetic and electronic properties

Structural Chemistry - The present study is focused to cast light on the structural, electronic and energetic properties of isolated (G4)2 and (X4)2 DNA quadruplexes with transition metal cations...     

A bifunctional,colorimetric and fluorescent probe for recognition of Cu2+ and Hg2+ and its application in molecular logic gate

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A multianalyte chemosensor on a single molecule: promising structure for an integrated logic gate

A novel fluorescent probe that possess both BODIPY and Rhodamine moieties has been designed for the selective detection of Hg(2+) and Ba(2+) ions on the controlling by a logic gate. The characteristic fluorescence of the Ba(2+)-selective OFF-ON and the Hg(2+)-selective fluorescence bathochromic shift can be observed, and the concept has been used to construct a combinational logic circuit at the molecular level. These results will be useful for further molecular design to mimic the function of the complex logic gates on controlling.     

Development of solution‐dispersible hyperbranched conjugated polymer nanoparticles for Fe3+ fluorescent detection and their application in logic gate

Solution‐dispersible hyperbranched conjugated polymer nanoparticles (FT‐HBCPNs) consist of an intrinsic crosslinked rigid skeleton structure of both 9,9‐dihexyl‐fluorene and triphenylamine repeating units, and are synthesized via the miniemulsion Suzuki polymerization, and FT‐HBCPNs for highly selective and sensitive Fe³⁺ fluorescent detection and their application in logic gate at molecular level are successfully developed. FT‐HBCPNs with an average particle size of 10.6 nm can disperse in common organic solvents. FT‐HBCPNs show high selectivity and sensitivity for Fe³⁺ over other commonly co‐existent metal ions in THF solution with a detection limit of 3.65 × 10^?8 mol L^?1. Furthermore, homogeneous transparent thin films of FT‐HBCPNs developed by a simple spin‐coating method can be reversibly quenched by Fe³⁺ with a detection limit of 3.09 × 10^?7 mol L^?1. Using Fe³⁺ and EDTA as chemical inputs and the fluorescence intensity signal as outputs, FT‐HBCPNs films can be utilized as a logic gate at molecular level. © 2016 Wiley Periodicals, Inc. J. Polym. Sci., Part A: Polym. Chem. 2016 , 54, 3694–3700     

Semibiological molecular machine with an implemented "AND" logic gate for regulation of protein folding

A semibiological molecular machine with an implemented "AND" logic gate was developed, which was capable of controlling the folding process of proteins in response to ATP and light as input stimuli. The molecular design made use of a genetically engineered chaperonin GroEL bearing, at both entrance parts of its cylindrical cavity, cysteine residues, which were functionalized by an azobenzene derivative to construct photoresponsive mechanical gates (azo-GroEL). This engineered chaperonin trapped denatured green fluorescent protein (GFP(denat)) and prohibited its refolding. However, when hosting azo-GroEL detected ATP (input stimulus 1) and UV light (input stimulus 2) at the same time, it quickly released GFP(denat) to allow its refolding. In contrast, reception of either input stimulus 1 or 2 resulted in only very slow or no substantial refolding of GFP(denat). Implementation of such "AND" logic gate mechanisms in mechanically driven biomolecular systems is an important step toward the design of secured drug delivery systems.     

Functional nucleic acid-based electrochemiluminescent biosensor for interaction study and detection of Ag+ ions and cysteine

An electrochemiluminescent biosensor was designed for the detection of Ag(+) ions and cysteine as well as their interaction study. To this end, a functional nucleic acid was designed for target recognition and probe intercalation.     

A versatile molecular beacon-like probe for multiplexed detection based on fluorescence polarization and its application for a resettable logic gate

A versatile molecular beacon (MB)-like probe was developed for multiplexed detection based on fluorescence polarization by target-induced allosteric effect and furthermore for resettable logic gate operation.     

Ab initio study on the adsorption of hydrated Na+ and Ag+ cations on a Ag(111) surface

The interactions of Na(+) and Ag(+) cations with an Ag(111) surface in the presence and absence of water molecules were investigated with cluster models and ab initio methods. The Ag surface was described with two-layered Ag(10) and Ag(18) cluster models, and MP2/RECP/6-31+G(d) was used as the computational method. The effect of the basis set superposition error (BSSE) was taken into account with counterpoise (CP) correction. The interactions between Na(+) and Ag(111) surface were found to be primarily electrostatic, and the interaction energies and equilibrium distances at the different adsorption sites were closely similar. The largest CP-corrected MP2 adsorption energy for Na(+) was -190.2 kJ/mol. Owing to the electrostatic nature of the Na(+)-Ag(111) interaction, Na(+) prefers to be completely surrounded by water molecules rather than directly adsorbed to the surface. Ag(+)-Ag(111) interactions were much stronger than Na(+)-Ag(111) interactions because they were dominated by orbital contributions. The largest CP-corrected MP2 adsorption energy for Ag(+) was -358.9 kJ/mol. Ag(+) prefers to adsorb on sites where it can bind to several surface atoms, and in the presence of water molecules, it remains adsorbed to the surface while the water molecules form hydrogen bonds with one another. The CP correction had an effect on the interaction energies but did not change the relative trends.     

A triethylenetetramine bearing anthracene and benzophenone as a fluorescent molecular logic gate with either-or switchable dual logic functions

Fluorescence behaviors of a triethylenetetramine bearing anthracene (AN) and benzophenone (BP) fragments at the respective ends, L1, have been studied in water, where effects of pH (H+) and metal cations on the emission properties have been studied in detail. L1 behaves as a fluorescent molecular logic gate driven by H+ (Input1) and metal cations (Input2) as input chemicals. The most notable feature of L1 is that this molecule expresses the "either-or" switchable dual logic functions. Operation of L1 with Cu2+ as Input2 expresses the INHIBIT logic function, where a strong AN fluorescence appears only at pH 4 (with H+) without Cu2+ [Input1(1)-Input2(0)]. In contrast, operations of L1 with all other metal cations as Input2 express the TRANSFER logic function, where the presence of H+ allows strong AN fluorescence regardless of whether the metal cation exists or not [Input1(1)-Input2(0); Input1(1)-Input2(1)]. These emission switching behaviors of L1 are driven by the difference in the coordination stability between L1 and metal cations and the photoinduced intramolecular electron and energy transfer processes: (i) a pH-induced electron transfer from unprotonated nitrogen atoms of the polyamine chain to the photoexcited AN [ELT(N-->AN*)]; (ii) a pH- and metal coordination-induced electron transfer from the photoexcited AN to the ground-state BP [ELT(AN*-->BP)]; and (iii) a Cu2+ coordination-induced energy transfer from the photoexcited AN to Cu2+ [ENT(AN*-->Cu2+)].     

A coumarin-based fluorescent probe for Hg2+ and Ag+ with an N'-acetylthioureido group as a fluorescence switch

For detection of Hg(2+) and Ag(+), we have developed a coumarin-based probe with an N'-acetylthioureido group as a novel fluorescence switch, in which the hydrogen bond formation between the N-hydrogen and the acetyl O atom markedly increases the susceptibility of the probe toward desulfurization by Hg(2+) and Ag(+).     

Dual-fluorescent donor-acceptor dyad with tercarbazole donor and switchable imide acceptor: promising structure for an integrated logic gate

A dual-fluorescent donor-acceptor (D-A) dyad with tercarbazole (donor) and 2,3-dithienylmaleimide (acceptor) was synthesized and characterized. The emission intensity of long wavelength could be regulated by either bistable structures of the dyad or the polarities of solvents. By mimicking the function of an integrated logic gate, a 2-input AND logic operation is established. [reaction: see text].     

A new fluorescence chemosensor based on benzothiazole derivative for Zn2+ and its logic gate behavior

A novel benzothiazole derivative J as a fluorescent chemosensor for Zn²⁺ has been designed and synthesized. The chemosensor J exhibits high selectivity and sensitivity to Zn²⁺ as fluorescence “turn-on” behavior, which the other cations do not make sense. The detection limit calculated by fluorescence titration method was 1.64 × 10^?8 M. Furthermore, the generated J-Zn²⁺ ensemble could recover the enhanced fluorescence upon the addition of EDTA generating an “on-off-on” recycle. In addition, the test strip based on J was fabricated, which could act as a convenient and efficient Zn²⁺ test kit.     

The electronic structure of Cu+, Ag+, and Au+ zeolites

A variety of procedures have been used to prepare d10-zeolite materials. The electronic structure of these materials can be regarded to a first approximation as a superposition of the framework, of the charge compensating ions, of solvent molecules and of guest species. Zeolite oxygen to d10-ion charge transfer transitions dominate the electronic spectra if the ions coordinate to the zeolite oxygens. Specific coordination sites can influence the energy and the intensity of these transitions remarkably. Intra guest transitions dominate in quantum dot materials, as discussed in detail for luminescent Ag2S zeolite A. The zeolite is not needed for the photocatalytic water oxidation on Ag+/AgCl photo anodes with visible light. It can, however, be used to increase the active surface area substantially.