A new hydrophobic linker effective for the in situ synthesis of DNA-CPG conjugates as tools for SNP analysis

DNA chips consisting of DNA oligonucleotide probes immobilized on the surface of solid supports are very powerful tools for rapid analysis of multiple samples. In this Letter we describe a new method for the efficient synthesis of DNA probes without their serious elimination by use of a new hydrophobic 16-hyroxydecanoic linker and a new non-aqueous reagent of MeNH₂/THF for the deprotection of the base and phosphate protecting groups on CPG resins. The elimination of DNA probes in this new method could be suppressed more than 20-fold compared with the previous method using a hexaethylene glycol linker and concd NH₄OH. Moreover, we carried out SNPs detection by use of our DNA-CPG conjugate to show the utility of our new linker and deprotection conditions.     

Alkali Metal and Trimethylsilyl Carbamoselenothioates – Synthesis,Structure, and some Reactions

This paper describes the synthesis and some reactions of potassium, rubidium, cesium and trimethylsilyl carbamoselenothioates. The potassium salts were synthesized in 70–80 % yields by reacting the corresponding thiocarbamoyl chlorides with potassium selenide in acetonitrile. Furthermore, the rubidium and cesium salts were obtained in good yields by treating the trimethylsilyl esters with the corresponding metal fluorides. The crystal structure of acetonitrile‐solvated potassium N,N‐dimethylcarbamoselenothioate consisted of dimeric units, featuring μ‐carbamoselenothioate anions associated with potassium cations that are located on the upper and lower sides of a plane involving two opposing carbamoselenothioate groups. These heavier alkali metal salts readily reacted with alkyl halides to give both S‐ and Se‐alkyl esters. The reaction of the potassium salts with trimethylsilyl chlorides forms S‐ and Se‐trimethylsilyl carbamoselenothioates which are in equilibrium. The reaction of the salts and silyl esters with organo Group‐14 and ‐15 elements halides gave exclusively the corresponding Se‐substituted products in good yields.     

Cleavage of a P=P Double Bond Mediated by N-Heterocyclic Carbenes

The reaction of the bulky diphosphenes (Rind)P=P(Rind) ( 1 ; Rind=1,1,3,3,5,5,7,7-octa-R-substituted s-hydrindacen-4-yl) with two molecules of N-heterocyclic carbene (NHC; 1,3,4,5-tetramethylimidazol-2-ylidene) resulted in the quantitative formation of the NHC-bound phosphinidenes NHC→P(Rind) ( 2 ), along with the cleavage of the P=P double bond. The reaction times are dependent on the steric size of the Rind groups (11 days for 2 a (R=Et) and 2 h for 2 b (R=Et, Me) at room temperature). The mechanism for the double bond-breaking is proposed to proceed via the formation of the NHC-coordinated, highly polarized diphospehenes 3 as an intermediate. Approach of a second NHC to 3 induces P−P bond cleavage and P−C bond formation, which proceeds through a transition state with a large negative Gibbs energy change to afford the two molecules of 2 , thus being the rate-determining step of the overall reaction with the activation barriers of 80.4 for 2 a and 29.1 kJ mol⁻¹ for 2 b .     

Generic guiding principle of HTSC material design for high-field application

Through the analyses on the irreversibility lines (ILLs) under H||c for various high-T_c superconducting (HTSC) single-crystalline samples, we found two universal functions representing ILLs. In these functions, the electromagnetic anisotropy factor γ² plays a crucial role. The appropriate chemical substitution, such as Bi(Pb)2212, is an effective method to improve flux pinning properties via decreasing γ².     

Drying dissipative structures of colloidal crystals of silica spheres coated with polymer brushes of poly(carboxymethyl betaine)

Drying patterns of colloidal crystals of colloidal silica spheres coated with the brushes of zwitterionic poly(carboxymethyl betaine) (SiP-PCMB) and their parent silica spheres (SiP) were studied on a cover glass, a watch glass, and a Petri glass dish. Crystal structures kept the whole process of dryness of the suspensions of SiP-PCMB and SiP. Crystal structures of the dried films of SiP-PCMB were kept stable even when the initial suspensions contained 5 mM of sodium chloride, which is the important role of the excluded volume effects of the shells of the polymer brushes. On the other hand, crystal structures of SiP spheres in the dried films were much unstable and melted in the presence of 5 mM sodium chloride. In the suspension state, colloidal crystallization of SiP-PCMB took place stably by the contribution of the excluded volume effects besides the extended electrical double layers compared with that of SiP spheres, where only the double layer effect contributes to the crystallization. The fractal patterns of the complexation of SiP-PCMB or SiP spheres with sodium chloride were observed microscopically in the dried films. Several kinds of dissipative crystallization such as array and/or accumulation of the crystallites were observed, and the importance of the convectional and sedimentation processes during the course of dryness was demonstrated.     

Thermal decomposition and glass transition of industrial hydrolysis lignin

Thermal properties of industrial hydrolysis lignin (HL) obtained from bio-ethanol production plants were investigated by thermogravimetry and differential scanning calorimetry. Thermal decomposition of HL was observed in two stages suggesting coexisting carbohydrates. Glass transition temperature (T _g) was observed in a temperature range from 248 to 363 K. T _g values were lower than that of other industrial lignins, such as kraft lignin or lignosulfate. Enthalpy relaxation was observed as sub-T _g, which is not as prominent as other industrial or laboratory scale isolated lignins. T _g of HL decreased in the presence of water and saturated at water content (W _c) of 0.18 (mass of water/mass of dry HL). The amount of bound water calculated from melting enthalpy of water and W _c was ca. 0.18. Thermal decomposition and molecular motion of as obtained industrial HL are affected by coexisting carbohydrates.     

Comparative analysis of binding energy of chymostatin with human cathepsin A and its homologous proteins by molecular orbital calculation

Cathepsin A is a mammalian lysosomal enzyme that catalyzes the hydrolysis of the carboxy-terminal amino acids of polypeptides and also regulates beta-galactosidase and neuraminidase-1 activities through the formation of a multienzymic complex in lysosomes. Human cathepsin A (hCathA), yeast carboxypeptidase (CPY), and wheat carboxypeptidase II (CPW) belong to the alpha/beta-hydrolase fold family. They have structurally similar active-site clefts, but there are small differences in the amino acid residues comprising their active sites that might determine the substrate specificity and sensitivity to microbial inhibitors including chymostatin. To examine the selectivity and binding mechanism of chymostatin as to hCathA, CPY, and CPW at the atomic level, we analyzed the interaction energy between chymostatin and each protein quantitatively by semiempirical molecular orbital calculation AM1 with the continuum solvent model. We predicted the electrostatic repulsion between the P3 cyclic arginine residue of the inhibitor and the Arg344 in the S3 active subsite of hCathA. Genetic conversion of Arg344 of the wild-type hCathA to Ile also caused an increase in its sensitivity to chymostatin, which was correlated with the decrease in the interaction energy calculated with the molecular orbital method. The present results suggest that such molecular calculation should be useful for evaluating the interactions between ligands, including inhibitors and homologous enzymes, in their docking models.     

Nondestructive testing in human teeth using a leaky Lamb wave device

A Lamb wave interdigital transducer mounted on a layered substrate composed of two plates, a thin piezoelectric ceramic plate and an acrylic plate, operating at a liquid-solid boundary, is investigated for ultrasonic nondestructive testing of the layer thickness in human teeth. A higher-order mode having a phase velocity higher than the longitudinal wave velocity in the human teeth can be used for nondestructive testing. In the combination of the two layers, the fourth mode of leaky Lamb wave is most favorable for a frequency-controllable radiation angle of an ultrasound beam into a water layer as an acoustic coupler. In the configuration of an acoustic delay line, the layer-thickness measurement in vivo, evaluated from the time interval between two reflected ultrasound echoes, is successfully realized under a thin water layer as the acoustic coupler.     

Explicit Formulas and Asymptotic Expansions for Certain Mean Square of Hurwitz Zeta-Functions: III

The main object of this paper is the mean square I _h (s) of higher derivatives of Hurwitz zeta functions (s, ). We shall prove asymptotic formulas for I _h (1/2 + it) as t + with the coefficients in closed expressions (Theorem 1). We also prove a certain explicit formula for I _h (1/2 + it) (Theorem 2), in which the coefficients are, in a sense, not explicit. However, one merit of this formula is that it contains sufficient information for obtaining the complete asymptotic expansion for I _h (1/2 + it) when h is small. Another merit is that Theorem 1 can be strengthened with the aid of Theorem 2 (see Theorem 3). The fundamental method for the proofs is Atkinson's dissection argument applied to the product (u, )(v, ) with the independent complex variables u and v.