Colorimetric detection of PCR products of DNA from pathogenic bacterial targets based on a simultaneously amplified DNAzyme

A novel strategy was devised for colorimetric analysis of the products of the polymerase chain reaction (PCR). The method takes advantage of simultaneous amplification of a horseradish peroxidase-mimicking DNAzyme (HRPzyme) during the PCR process. It is performed using a DNA specific forward primer and a universal reverse primer containing a complementary HRPzyme sequence. The double-strand PCR products, which include the HRPzyme sequence, are treated with a mixture of hemin and TMB (3,3′,5,5′–tetramethylbenzidine) in the presence of hydrogen peroxide. The resulting HRPzyme/hemin complex then promotes a peroxidase mimicking reaction, which produces the blue colored oxidized TMB. This colorimetric method can be more easily performed than previously developed gel based detection procedures and, as a result, can be conveniently applied to the specific and sensitive colorimetric analysis of DNA sequences arising from pathogenic bacteria. The potentially broad applicability of the new method has been demonstrated by its use in the identification of the 16s rDNA of Salmonella Typhimurium. Figure

A novel strategy was devised for simple colorimetric analysis of PCR products with amplification of a horseradish peroxidase-mimicking DNAzyme(HRPzyme). This colorimetric method can be much more easily performed than previously developed gel based detection procedures and potentially broad applicability for other DNA analysis.     

Substituent effect on the luminescent properties of a series of deep blue emitting mixed ligand Ir(III) complexes

The syntheses of the bright deep blue emitting mixed ligand Ir(III) complexes comprising two cyclometalating, one phosphine and one cyano, ligands are reported. In this study, a firm connection between the nature of the excited states and the physicochemical behavior of the complexes with different ligand systems is elucidated by correlating the observed crystal structures, spectroscopic properties, and electrochemical properties with the theoretical results obtained by the density functional theory (DFT) methods. The cyclometalating ligands used here are the anions of 2-(4',6'-difluorophenyl)-pyridine (F2ppy), 2-(4',6'-difluorophenyl)-4-methyl pyridine (F2ppyM), and 4-amino-2-(4',6'-difluorophenyl)-pyridine (DMAF2ppy). The phosphine ligands are PhP(O-(CH2CH2O)3-CH3)2 and Ph2P(O-(CH2CH2O)n-CH3), where Ph = phenyl and n = 1 (P1), 3 (P3), or 8 (P350). The thermal stabilities of the complexes were enhanced upon increasing the "n" value. The crystal structures of the complexes, [(DMAF2ppy)2Ir(P1)CN], (P1)DMA, and [(F2ppyM)2Ir(P3)CN], (P3)F2M, show the cyano and phosphine groups being in a cis configuration to each other and in a trans configuration to the coordinating Cring atoms. The long Ir-Cring bond lengths are ascribed to the trans effect of the strong phosphine and cyano ligands. DFT calculations indicate that the highest occupied molecular orbital (HOMO) is mainly contributed from the d-orbitals of the iridium atom and the pi-orbitals of cyclometalating and cyano ligands, whereas the lowest unoccupied molecular orbital (LUMO) spreads over only one of the cyclometalating ligands, with no contribution from phosphine ligands to both frontier orbitals. Dimethylamino substitution increases the energy of the emitting state that has more metal-to-ligand-charge-transfer (MLCT) character evidenced by the smaller vibronic progressions, smaller difference in the 1MLCT and 3MLCT absorption wavelengths, and higher extinction coefficients (epsilon) than the F2ppy and F2ppyM complexes. However, the increase in the basicity of the dimethylamino group in the DMAF2ppy complexes in the excited states leads to distortions and consequent nonradiative depopulation of the excited states, decreasing their lower photoluminescence (PL) efficiency. The effect of the substituents in the phosphine ligand is more pronounced in the electroluminescence (EL) than in the PL properties. Multilayer organic light emitting devices (OLEDs) are fabricated by doping the Ir(III) complexes in a blend of mCP (m-bis(N-carbazolyl benzene)) and polystyrene, and their device characteristics are studied. The (P3)F2M complex shows a maximum external quantum efficiency (etaex) of 2%, a maximum luminance efficiency (etaL) of 4.13 cd/A at 0.04 mA/cm2, and a maximum brightness of 7200 cd/m2 with a shift of the Commission Internationale de L'Eclairage (CIE) coordinates from (0.14, 0.15) in film PL to (0.19, 0.34) in EL.     

A new strategy for molecular modeling and receptor-based design of carborane containing compounds

Difficulties associated with computer-aided molecular design (CAMD) of carborane containing molecules have hampered drug development in boron neutron capture therapy (BNCT). A new approach of modeling and docking of carborane containing molecules with the readily available software packages , and is described. This new method is intended as a guide for boron chemists interested in using CAMD of carborane containing agents for medical applications such as BNCT.     

Temperature distribution in deep tissue phantom during laser irradiation at 1,064 nm measured by thermocouples and thermal imaging technique

Abstract  

Moxibustion generates heat stimulation which expands blood vessels and promotes blood circulation. Furthermore, moxibustion provokes the release of diffuse noxious inhibitory controls (DNIC) to treat and prevent diseases. However, inherent drawbacks, such as pain, burn scars, smoke and bad smells, limit its use. A novel noncontact-type laser therapy device having effect similar to that of commercial moxibustion is being developed using a 1,064-nm infrared (IR) diode-pumped solid state (DPSS) laser. The therapy device allows direct interaction of laser light with the skin rendering temperature distribution both on the skin surface and deep under the skin. We devised a sample holder containing a tissue phantom to measure the three-dimensional temperature distribution with thermocouples inserted deep inside the phantom. Agar gel of 2.5% concentration was used as the tissue phantom in our experiments. Our results revealed that the maximum temperature occurred far below the surface of the tissue phantom, which was heated by laser irradiation at 1,064 nm. This occurrence was also confirmed by a thermal imaging method. In contrast, temperature gradually decreased through the depth of the tissue phantom heated with commercial moxibustion. Simple analytical models were constructed to explain the underlying heat-transfer mechanisms involved in moxibustion and laser irradiation.     

A quantitative model to evaluate the ion-enrichment and ion-depletion effect at microchannel-nanochannel junctions

In a nanometer-scale fluidic channel (nanochannel), coions are depleted while counterions are concentrated due to the electric double layer (EDL) overlap. When an electric field is applied across the nanochannel, ions are enriched at one end and depleted at the other end of the nanochannel. This phenomenon is termed the ion-enrichment and ion-epletion (IEID) effect. In this paper, we develop a theoretical model to evaluate this effect. The model takes into accounts not only the biased electrophoretic migrations but also the net charge transportation caused by electroosmotic flow. In addition, we consider the conductance change inside the nanochannel in assessing the electric field strength across it. We employ our recently developed protocol to measure these values. We establish a protocol to measure/quantitate the IEID effect. Finally, we compare the calculated results with the experimentally measured data and show good agreements between them.     

Receptor-mediated endocytosis modeling of antibody-drug conjugates to the released payload within the intracellular space considering target antigen expression levels

An antibody-drug conjugate (ADC) is one of the effective treatment modalities designed as a targeted therapy for treating tumors. Certain ADCs such as brentuximab vedotin are known to kill negative tumor cells indirectly via membrane permeability and bystander-killing effect and to kill positive tumor cells directly. In this study, we propose a mathematical model to describe the ADC-receptor endocytosis mechanism and to predict payloads over a time profile more accurately, while considering target antigen-positive (Ag+)/negative (Ag--) cells. We discuss how the target-antigen expression levels derived using a ratio of Ag+ to Ag-- cells determine the payload release in the intracellular space. The model is aimed at capturing the amount of the payloads based on the target expression levels with the total number of cells fixed. The results indicate that (i) the profile of the total payloads over a time within the intracellular space is less influenced by the target expression levels after a time period, but the slope at the growth phase in which the payload increases is determined by the target expression levels, (ii) the change in the area under the curve of the total intracellularly released payload with a change in the ratio of Ag+ to Ag-- cells is more significant due to the initial ADC injection, (iii) the fluctuations in the released payloads within the Ag+ cells increase as the target expression levels decrease, unlike in the case of Ag-- cells or extracellular space. In addition, the time $t_{max}$ that corresponds to the maximum payload concentration $C_{max}$ is shifted towards the right as the target-antigen levels decrease, and it is strengthened by an increase in the initial free ADCs. The proposed model may reduce the discrepancy between the experiment and the model in the prediction of payloads over time profile.     

The Combination of Niacinamide,Vitamin C,and PDRN Mitigates Melanogenesis by Modulating Nicotinamide Nucleotide Transhydrogenase

Nicotinamide nucleotide transhydrogenase (NNT) is involved in decreasing melanogenesis through tyrosinase degradation induced by cellular redox changes. Nicotinamide is a component of coenzymes, such as NAD⁺, NADH, NADP⁺, and NADPH, and its levels are modulated by NNT. Vitamin C and polydeoxyribonucleotide (PDRN) are also known to decrease skin pigmentation. We evaluated whether a mixture of nicotinamide, vitamin C, and PDRN (NVP-mix) decreased melanogenesis by modulating mitochondrial oxidative stress and NNT expression in UV-B-irradiated animals and in an in vitro model of melanocytes treated with conditioned media (CM) from UV-B-irradiated keratinocytes. The expression of NNT, GSH/GSSG, and NADPH/NADP⁺ in UV-B-irradiated animal skin was significantly decreased by UV-B radiation but increased by NVP-mix treatment. The expression of NNT, GSH/GSSG, and NADPH/NADP⁺ ratios decreased in melanocytes after CM treatment, although they increased after NVP-mix administration. In NNT-silenced melanocytes, the GSH/GSSG and NADPH/NADP⁺ ratios were further decreased by CM compared with normal melanocytes. NVP-mix decreased melanogenesis signals, such as MC1R, MITF, TYRP1, and TYRP2, and decreased melanosome transfer-related signals, such as RAB32 and RAB27A, in UV-B-irradiated animal skin. NVP-mix also decreased MC1R, MITF, TYRP1, TYRP2, RAB32, and RAB27A in melanocytes treated with CM from UV-irradiated keratinocytes. The expression of MC1R and MITF in melanocytes after CM treatment was unchanged by NNT silencing. However, the expression of TYRP1, TYRP2, RAB32, and RAB27A increased in NNT-silenced melanocytes after CM treatment. NVP-mix also decreased tyrosinase activity and melanin content in UV-B-irradiated animal skin and CM-treated melanocytes. In conclusion, NVP-mix decreased mitochondrial oxidative stress by increasing NNT expression and decreased melanogenesis by decreasing MC1R/MITF, tyrosinase, TYRP1, and TYRP2.     

Comparative analysis of characteristics of Si, Mg, and undoped GaN

We have grown undoped, Si- and Mg-doped GaN epilayers using metalorganic chemical vapor deposition. The grown samples have electron Hall mobilities (carrier concentrations) of 798 cm²/V s (7×10¹⁶ cm⁻³) for undoped GaN and 287 cm²/V s (2.2×10¹⁸ cm⁻³) for Si-doped GaN. Mg-doped GaN shows a high hole concentration of 8×10¹⁷ cm⁻³ and a low resistivity of 0.8 Ω cm. When compared with undoped GaN, Si and Mg dopings increase the threading dislocation density in GaN films by one order and two orders, respectively. Besides, it was observed that the Mg doping causes an additional biaxial compressive stress of 0.095 GPa compared with both undoped and Si-doped GaN layers, which is due to the incorporation of large amount of Mg atoms (4–5×10¹⁹ cm⁻³).     

Substrate specificity of <Emphasis Type="Italic">Streptomyces</Emphasis> transglutaminases

Transglutaminase (TGase) is a multifunctional enzyme vital for many physiologic processes, such as cell differentiation, tissue regeneration, and plant pathogenicity. The acyl transfer function of the enzyme can activate primary amines and, consequently, attach them onto a peptidyl glutamine, a reaction important for various in vivo and in vitro protein crosslinking and modification processes. To understand better the structure-function relationship of the enzyme and to develop it further as an industrial biocatalyst, we studied TGase secreted by several Streptomyces species and Phytophthora cactorum. We purified the enzyme from S. lydicus, S. platensis, S. nigrescens, S. cinnamoneus, and S. hachijoensis. The pH and temperature profiles of S. lydicus, S. platensis, and S. nigrescens TGases were determined. The specificity of S. lydicus TGase toward its acyl-accepting amine substrates was characterized. Correlation of the electronic and steric features of the substrates with their reactivity supported the mechanism previously proposed for Streptomyces mobaraensis TGase.     

Tuning the active species from syndiospecific styrene polymerisation to ethylene/styrene copolymerisation by (aryloxo)(cyclopentadienyl)titanium complexes-MAO catalysts

Exclusive formation of poly(ethylene-co-styrene)s were observed by introduction of ethylene into the solution of syndiospecific styrene polymerisation using Cp'TiCl(2)(O-2,6-(i)Pr(2)C(6)H(3)) (Cp' = 1,2,4-Me(3)C(5)H(2), tert-BuC(5)H(4))-MAO catalysts without by-production of syndiotactic polystyrene, whereas the styrene polymerisation did not proceed when ethylene was removed from the reaction mixture of ethylene/styrene copolymerisation.