DNA-binding small-ligand-immobilized surface plasmon resonance biosensor for detecting thymine-related single-nucleotide polymorphisms

A surface plasmon resonance (SPR) biosensor that carries DNA-binding small ligands has been developed for the detection of single-nucleotide polymorphisms (SNPs). 3,5-Diaminopyrazine derivatives, with a hydrogen-bonding profile fully complementary to the thymine base, were utilized as recognition elements on the sensor surface, and a target single-stranded DNA sequence was hybridized with a DNA probe containing an abasic site to place this site opposite a nucleobase to be detected. In a continuous flow of sample solutions buffered to pH 6.4 (0.25 M NaCl), the 3,5-diaminopyrazine-based SPR sensor can detect an orphan nucleobase in the duplex with a clear selectivity for thymine over cytosine, guanine, and adenine (5'-GTT GGA GCT GXG GGC GTA GGC-3'/3'-CAA CCT CGA CNC CCG CAT CCG-5'; X=abasic site, N=target nucleobase G, C, A, or T). The SPR response was linear in the concentration range 10-100 nM. Allele discrimination is possible based on the combination of different binding surfaces in a flow cell of the SPR system, which is demonstrated for the analysis of the thymine/cytosine mutation present in 63-meric polymerase chain reaction (PCR) amplification products (Ha-ras gene, codon 12, antisense strand). Comparison with a bulk assay based on 3,5-diaminopyrazine/DNA binding shows that the immobilization of 3,5-diaminopyrazine derivatives on the SPR sensor allows more sensitive detection of the target DNA sequence, and binding selectivity can be tuned by controlling the salt concentration of sample solutions. These features of the DNA-binding small-molecule-immobilized SPR sensor are discussed as a basis for the design of SPR biosensors for SNP genotyping.     

Preparation of soluble and fusible poly(2,5-dimethoxy-1,4-phenylene)

Poly(2,5-dimethoxy-1,4-phenylene) was prepared by oxidative polymerization of p-dimethoxybenzene with aluminum chloride and copper(II) chloride in nitrobenzene under reduced pressure. The polymers obtained were soluble in sulfuric acid and fusible at 320°C. The intrinsic viscosity of the polymer was ca. 0.07 in sulfuric acid. Demethylation of methoxy groups did not occur during the polymerization.     

Synthesis of Optically Active Aromatic Ether Ketone Macrocycles Containing 2,2′-Dimethoxy-1,1′-binaphthyl-6,6′-diyl Moieties

Optically active aromatic ether ketone macrocycles containing 2,2′-dimethoxy-1,1′-binaphthyl-6,6′-diyl moieties were synthesized through electrophilic aromatic substitution reaction and stepwise nucleophilic aromatic substitution reactions. Structures of the resulting macrocycles were confirmed by NMR and matrix assisted laser desorption/ionization time of flight (MALDI-TOF) mass measurements.     

1-D cobalt(II) spin transition compound with strong interchain interaction: [Co(pyterpy)Cl(2)].X

Cobalt(II) compounds [Co(pyterpy)Cl(2)].MeOH (1.(MeOH)) and [Co(pyterpy)Cl(2)].2H(2)O (1.(2H(2)O)) were synthesized. The compound 1.(MeOH) forms the quasi 3-D networks by making pi-pi stacking between the 1-D chains. The methanol molecules from 1.(MeOH) can be removed by heating, and substituted by absorption of water molecules. The MeOH molecules in 1.(MeOH) are removed by heating at 410 K, and they are substituted by water molecules to form 1.(2H(2)O). 1.(2H(2)O) exhibits a S = (3)/(2) (HS) left arrow over right arrow S = (1)/(2) (LS) spin transition with a thermal hysteresis. We have succeeded in constructing a guest dependent 1-D spin-crossover cobalt(II) compound.     

Metal-organic frameworks from copper dimers with cis- and trans-1,4-cyclohexanedicarboxylate and cis,cis-1,3,5-cyclohexanetricarboxylate

Single crystals of three coordination networks containing the Cu(2)(COO)(4) core bridged by cyclohexane have been hydrothermally prepared by the reaction of 1,4-cyclohexanedicarboxylic (1,4-H(2)chdc) or 1,3,5-cyclohexanetricarboxylic (1,3,5-H(3)chtc) acid and Cu(NO(3))(2) x 6H(2)O. We report their characterizations by single-crystal X-ray structure determinations, IR spectroscopy, thermal analyses, and their magnetic properties. [Cu(2)(trans-1,4-chdc)(2)] (1) consists of 4 x 4 grids with the dimeric nodes connected by the trans-1,4-chdc, and these grids are then connected to each other by Cu-O bonds, resulting in a porous network (void volume of 130 Angstrom(3) per cell or 25%) with no solvent in its cavities. [Cu(2)(cis-1,4-chdc)(2)(H(2)O)(2)] (2) consists of two-legged ladders where the dimer nodes are bridged by pairs of cis-1,4-chdc and the water molecules cap the ends of the Cu dimers. [Cu(2)(1,3,5-Hchtc)(2)] (3) displays 4 x 4 grids, but each dimeric node is connected to its neighbors within the same grid by Cu-O bonds to form a layered network which further makes hydrogen-bond interactions with its neighbors. 2 and 3 have compact structures without any space for solvents. IR and DT-TGA confirm the absence of water in the empty channels of 1, while IR shows the presence of both protonated and deprotonated carboxyl groups for 3. The magnetic properties of all three compounds are dominated by the strong Cu-Cu antiferromagnetic interaction resulting in singlet-triplet gaps of 450-500 K.     

Single molecular multianalyte sensor: jewel pendant ligand

[structure: see text] The jewel pendant ligand has multiple chromogenic units combined in a single molecule with the dyes linked to a semiselective binding site by three heteroatoms (O, N, S) having different HSAB characteristics, to indicate diverse response to individual transition metal ions. Using a single-molecular multianalyte sensor, multiple analytes could be determined with a minimal sensing system.     

Synthesis and photophysical properties of luminescent mononuclear and dinuclear gold(I) complexes with ethynyl-substituted phenanthrolines

A novel asymmetric dinuclear gold(I) complex with 3,6-diethynylphenanthroline, 3,6-bis{(PPh₃)–Au–C≡C}₂-phen, has been synthesized from Au(PPh₃)Cl (PPh₃ = triphenylphosphine) and 3,6-diethynyl-1,10-phenanthroline. The asymmetrical dinuclear gold(I) complex, 3,6-bis{(PPh₃)–Au–C≡C}₂-phen, demonstrated a weak phosphorescence assignable to the metal-perturbed ³ π–π* transition in the long wavelength region compared to an intense emission of the symmetrical dinuclear complex with 3,8-diethynylphenanthroline, 3,8-bis{(PPh₃)–Au–C≡C}₂-phen. A similar tendency of phosphorescent bands for the mononuclear gold(I) complexes with 5-ethynylphenanthroline, 5-{(PPh₃)–Au–C≡C}-phen, and 3-ethynylphenanthroline, 3-{(PPh₃)–Au–C≡C}-phen was observed. The absorption bands assignable to the π–π*(C≡Cphen) transition and phosphorescent emission assignable to the metal-perturbed ³ π–π* transition for these four gold(I) complexes were reasonably consistent with the results calculated by DFT and TD-DFT.     

Tuning of Electronic Properties of Single‐Walled Carbon Nanotubes under Homogenous Conditions

Reversible and non‐bonding interaction between SWNTs and ODCB is observed from the analyses of visible near‐infrared absorption data and Raman spectroscopies (see spectra). The solvent effect on SWNTs effectively controls the electronic structure of SWNTs under homogeneous conditions.

     

Chiral bifunctional organocatalysts bearing a 1,3-propanediamine unit for the aza-MBH reaction

The introduction of a 1,3-propanediamine unit at the 3-position of (S)-BINOL using a methylene spacer led to the formation of a chiral bifunctional organocatalyst for the aza-Morita–Baylis–Hillman (aza-MBH) reaction. The organocatalyst 1k mediated aza-MBH transformations with high chemical yields and with up to 82% ee.     

Fast and quantitative analysis of branched-chain amino acids in biological samples using a pillar array column

In this study, a fast and quantitative determination method for branched-chain amino acids (BCAAs), namely leucine, isoleucine, and valine, was developed using a pillar array column. A pillar array column with low-dispersion turns was fabricated on a 20?×?20-mm² microchip using multistep ultraviolet photolithography and deep reactive ion etching. The BCAAs were fluorescently labeled with 4-fluoro-7-nitro-2,1,3-benzoxadiazole (NBD-F), followed by reversed-phase separation on the pillar array column. The NBD derivatives of the three BCAAs and an internal standard (6-aminocaproic acid) were separated in 100 s. The calibration curves for the NBD-BCAAs had good linearity in the range of 0.4–20 μM, using an internal standard. The intra- and interday precisions were found to be in the ranges of 1.42–3.80 and 2.74–6.97 %, respectively. The accuracies for the NBD-BCAA were from 90.2 to 99.1 %. The method was used for the analysis of sports drink and human plasma samples. The concentrations of BCAAs determined by the developed method showed good agreements with those determined using a conventional high-performance liquid chromatography system. As BCAAs are important biomarkers of some diseases, these results showed that the developed method could be a potential diagnostic tool in clinical research.