Pipette tip biosensors for bacterial double-stranded DNA using bioluminescence induced by zinc finger luciferase

The authors describe a pipette type of biosensor for detecting target genes and using a zinc finger protein fused to luciferase (ZF luciferase). The ZF protein binds to a specific DNA sequence, and the target double-stranded (ds) DNA can be detected by monitoring the enzymatic activity of ZF luciferase. A small avidin-immobilized reaction plate is placed on a plastic pipette tip (referred to as Biologi tip). The dsDNA detection procedures are carried out by using a programmable dispensing robot equipped with a photodetector. These procedures include (a) the aspiration of an analyte to capture the biotinylated target dsDNA (a product of a polymerase chain reaction) on the small reaction plate inside the pipette tip, (b) the introduction of ZF luciferase and luciferin into the pipette tip, and (c) migration of the pipette tip to the detection port to measure bioluminescence on the small reaction plate. The emission originating from luciferase activity is observed on the reaction plate containing immobilized biotin-tagged target dsDNA, whereas plates containing non-target or biotinylated single-stranded DNA only do not yield a signal. The intensity of emission increases proportionally to the concentration of dsDNA, and the detection limit of the target dsDNA is as low as 62 pM. An actual genomic DNA sample from Escherichia coli O157 was successfully detected by this automatic analyzer using the Biologi tip equipped with a reaction plate. This indicates that this system has a large potential for practical applications, including in particular point-of-care analyses in hygiene control, food safety testing, and clinical diagnosis.

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Graphical abstract A pipette-type biosensor was developed to detect target genes using a luciferase-fused zinc finger protein, where a small NeutrAvidin-immobilized reaction plate was placed on the tip, and the biotinylated target double-stranded DNA was detected by monitoring the bound luciferase activity.

     

Potent 2,2-diphenyl-1-picrylhydrazyl radical-scavenging activity of novel antioxidants, double-stranded tyrosine residues conjugating pyrocatechol

New potent antioxidants conjugating the catechol (=pyrocatechol; pyrCat) group to two N-termini of modified double-stranded tyrosine residues were synthesized and showed radical scavenging activity with 2,2-diphenyl-1-picrylhydrazyl radical (DPPH radical, DPPH˙) as a free radical model, second-order rate constants for the DPPH˙ scavenging reaction, and the results from electron spin resonance (ESR) studies. It was found that the tyrosine (Tyr) residue and pyrCat containing new antioxidants developed in the study have about 3-20 times more potent antioxidative activity than Trolox, pyrCat, and L-ascorbic acid (VC). In order to elucidate the relationship between antioxidant activity and the molecular orbital states, and to design potent antioxidants we present an interesting approach using an absolute hardness (η)-absolute electronegativity (χ) diagram based on chemical hardness. It was shown that quantum chemicals were required to develop potent antioxidants.     

Correlating flame geometry in opposed-flow flame spread over thin fuels

Numerical analysis and scale analysis are combined in a novel manner in this work to develop closed-form expressions for flame geometry in opposed-flow flame spread over condensed fuels. A scale analysis is used to relate different geometric attributes to appropriate non-dimensional parameters. A comprehensive numerical model is then used to generate a large set of numerical data for flame height, flame length, and pyrolysis length as functions of different fuel and oxidizer parameters for flame spread in the thermal, kinetic, and radiative regimes. The numerical data is then correlated to scaled expressions and the unknown coefficients are numerically determined. It is shown that flame length, flame height, and pyrolysis length can be expressed in terms of the preheat length in different regimes of flame spread. An experimental approach is outlined to measure the preheat length necessary for accurately predicting the flame structure. Experimental images obtained from interferometry in two different regimes – downward spreading configuration and quiescent microgravity environment – are consistent with the proposed flame height correlation.     

Light focusing by slot Fabry-Perot photonic crystal nanoresonator on scanning tip

We numerically investigate the propagation of light through the photonic crystal (PhC) waveguide on low refraction index material for near-field light focusing at the visible wavelength (635 nm) by incorporating a center air slot and Fabry-Perot resonator on the scanning tip. Perturbations by water and substrate refraction index changes of the PhC are analyzed by the finite-difference time-domain method to show minimal impact on light confinement and throughput. Such a total dielectric probe tip design has great potential to complement the current widely used metal-coated optical-fiber-based light confinement probe.     

A theory of extra radiation in the Universe

Recent cosmological observations, such as the measurement of the primordial ⁴He abundance, CMB, and large scale structure, give preference to the existence of extra radiation component, ΔNν>0$\mathrm{\Delta }{N}_{\nu }>0$. The extra radiation may be accounted for by particles which were in thermal equilibrium and decoupled before the big bang nucleosynthesis. Broadly speaking, there are two possibilities: (1) there are about 10 particles which have very weak couplings to the standard model particles and decoupled much before the QCD phase transition; (2) there is one or a few light particles with a reasonably strong coupling to the plasma and it decouples after the QCD phase transition. Focusing on the latter case, we find that a light chiral fermion is a suitable candidate, which evades astrophysical constraints. Interestingly, our scenario predicts a new gauge symmetry at TeV scale, and therefore may be confirmed at the LHC. As a concrete example, we show that such a light fermion naturally appears in the E₆$E_6$-inspired GUT.     

Versatile self-assembled hybrid systems with exotic structures and unique functions

In this review article, we describe recent progress about exotic self-assembled systems with various dimensions including biomolecules, supramolecules, unique hydrophobic amphiphiles, polymers, nano-clusters, and colloidal particles. Construction of robust biomolecular assemblies with exotic structures, such as ring and hollow capsule, is achieved by rational designs of symmetric biomolecular conjugates. In addition, we comprehensively summarized leading-edge topics on optical/topological properties of self-assembled hybrid systems, such as circularly polarized luminescence or structural color. The preparation of colloidal amorphous array with photonic band gap-induced angle-independent structural color is also achieved in consideration of the following situations: i) two-body sphere–sphere potential, ii) disorder packing using different sizes of colloidal particles, and iii) softness of colloidal particles. Lastly, we demonstrated useful utilizations of exotic self-assembled objects. Flakelike microparticles were transcribed into various nano-flake metals and applied as temperature indicator for the local heating of an addictive. All findings described here show meaningful hybrid strategies in self-assembly techniques and their functionalization as well as materialization.     

Oxygen‐sensing properties of 5,10,15,20‐tetraphenylporphinato platinum(II) and palladium(II) covalently bound on poly(isobutyl‐co‐2,2,2‐trifluoroethyl methacrylate)

A novel methacrylate monomer bearing 5,10,15,20‐tetraphenylporphyrinato palladium(II) (PdTPP) (monomer 1a ) was synthesized and copolymerized with isobutyl methacrylate (IBM) and 2,2,2‐trifluoroethyl methacrylate (TFEM) to give poly (IBM‐co‐TFEM) bearing PdTPP (copolymer 2a ) as a dye‐conjugated oxygen‐permeable polymer for pressure‐sensitive paint applications. The introduction of PdTPP into copolymer 2a was confirmed by UV–vis spectroscopy and extended X‐ray absorption fine structure analysis. The Stern–Volmer plots of the copolymer 2a and a mixture of PdTPP and poly(IBM‐co‐TFEM) both showed downward curvature, unlike that of the platinum complex analogue (copolymer 2b ) previously reported. The plots were successfully fitted with a two‐site model to give two distinct Stern–Volmer constants (K_SV1 and K_SV2) and the partition ratio f₁. Interestingly, the f₁ values for the copolymer 2a were almost constant at about 0.98, whereas those of the mixture of PdTPP and poly(IBM‐co‐TFEM) increased from 0.889 to 0.967 as the temperature was increased. This finding suggests that there are two distinct microheterogeneities, one temperature‐dependent and the other temperature‐independent, in the mixture of PdTPP and poly(IBM‐co‐TFEM). The dye‐conjugation approach effectively eliminates the temperature‐dependent, but not the temperature‐independent microheterogeneity. The luminescence decays of copolymers 2a and 2b and the corresponding mixtures in the absence of oxygen indicated that the temperature‐dependent microheterogeneity involves an oxygen diffusion process, whereas the temperature‐independent one appears to be inherent nature in PdTPP. © 2009 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 48: 663–670, 2010     

Preconcentration and determination of cadmium by GFAAS after solid-phase extraction with synthetic zeolite.

The solid-phase extraction (SPE) method for the preconcentration of trace amounts of cadmium using synthetic zeolite A-4 and its determination by graphite furnace atomic absorption spectrometry (GFAAS) was investigated. The preconcentration conditions, such as the optimum pH range of the sample solution for the adsorption of cadmium and the kind of acid solution for dissolving the cadmium-adsorbed synthetic zeolite A-4, as well as the measurement conditions for the determination of cadmium by GFAAS, e.g., the ashing and atomizing temperature, were investigated. Quantitative recovery of cadmium onto zeolite A-4 from the sample solution over the pH range 2.0 - 9.0 was achieved by the batch method. After the solid-phase (cadmium-adsorbed zeolite A-4) was separated from the sample solution by a membrane filter, it was dissolved in 2.0 cm(3) of 2.0 mol dm(-3) nitric acid. An aliquot of the resulting solution was injected into the graphite furnace. In GFAAS measurements an alternate gas (Ar, 90%; O(2), 10%) was used as a sheath gas, and the ashing temperature and atomizing temperature were 400 degrees C and 1600 degrees C, respectively. The detection limit (3 sigma) for cadmium was 0.002 microg dm(-3). The relative standard deviation at 0.010 microg dm(-3) was 3.5 - 4.5% (n = 5). The proposed method has been successfully applied to the analysis of trace cadmium in environmental water samples.