ResonSense: simple linear fluorescent probes for quantitative homogeneous rapid polymerase chain reaction

Here we report a strand-specific fluorescent homogeneous assay format for rapid polymerase chain reaction (PCR). A number of similar assays are commonly used for research applications and are an ideal solution for a closed tube quantitative PCR. These assays use fluorescent resonant energy transfer (FRET) between donor and acceptor fluorescent moieties as the reporting mechanism. However, for different reasons these assays do not report amplification when very rapid cycling times are used. This is because current assays, such as TaqMan^®, are limited, in terms of assay speed, by the 5′-3′ exonuclease activity of Taq DNA polymerase. Other assays based on hybridisation require either a complex de-conformational event to occur, or require more than one probe to report amplification. Reducing the complexity of the experiment reduces costs in terms of design, optimisation and manufacture. Here, we describe ResonSense^® chemistries that use a simple linear fluorescent-labelled probe and a DNA minor-groove binding dye as either donor or acceptor moieties in a homogeneous assay format on the LightCycler^®. This assay format will provide for rapid analysis of samples and so it is particularly well suited to point-of-use testing.     

Nuclear fluorination of 2,4-diarylthiazoles with Accufluor

A series of 2,4-diphenylthiazole derivatives were synthesized and directly fluorinated at the 5-position by reaction with the N-F fluorinating reagent Accufluor^®. Although fluorination occurred selectively at the thiazole ring, it was always incomplete and thus yields for the novel fluorinated products were low to moderate (19-43%) following purification to remove starting material. Nonetheless, the target compounds were obtained in a convenient and straightforward manner. Selectfluor^® was not as effective as Accufluor^® as it gave a trace amount of the 5-chlorothiazole that was difficult to remove by chromatography.     

PEG modified poly(amide-b-ethylene oxide) membranes for CO2 separation

In the present work, membranes from commercially available Pebax^® MH 1657 and its blends with low molecular weight poly(ethylene glycol) PEG were prepared by using a simple binary solvent (ethanol/water). Dense film membranes show excellent compatibility with PEG system up to 50 wt.% of content. Gas transport properties have been determined for four gases (H₂, N₂, CH₄, CO₂) and the obtained permeabilities were correlated with polymer properties and morphology of the membranes. The permeability of CO₂ in Pebax^®/PEG membrane (50 wt.% of PEG) was increased two fold regarding to the pristine Pebax^®. Although CO₂/N₂ and CO₂/CH₄ selectivity remained constant, an enhancement of CO₂/H₂ selectivity (∼11) was observed. These results were attributed to the presence of EO units which increases CO₂ permeability, and to a probable increase of fractional free-volume. Furthermore, for free-volume discussion and permeability of gases, additive and Maxwell models were used.     

The effect of spatial confinement of Nafion in porous membranes on macroscopic properties of the membrane

Polyelectrolytes were incorporated into porous reinforcing materials to study the properties of ionomers in confined spaces and to determine the effect of the porous material on the behaviour of the membranes. Nafion^® was imbibed into porous polypropylene (Celgard^®), ultra-high-molecular weight polyethylene (Daramic^®), and polytetrafluoroethylene (PTFE) films. Through the use of reinforcing materials, it is possible to prepare membranes that are thinner, but stronger than pure ionomer membranes. Thin reinforced membranes have advantages such as lower areal resistance (as low as 0.14 Ω cm² for 57 μm CG3501 + Nafion^® compared to 0.34 Ω cm² for 89 μm cast Nafion^®) and lower dimensional changes due to swelling (as low as a 4% change in length and width for WDM + Nafion^® compared to 13% for cast Nafion^®). Using reinforcing materials results in a reduction in important membrane properties compared to bulk Nafion^®, such as proton conductivity (as low as 0.016 S cm⁻¹ for CG3401 + Nafion^® compared to 0.076 S cm⁻¹ for cast Nafion^®), effective proton mobility (as low as 3.2 × 10⁻⁴ cm² V⁻¹ s⁻¹ CG3401 + Nafion^® compared to 7.6 × 10⁻⁴ cm² V⁻¹ s⁻¹ for cast Nafion^®), and water vapour permeance (as low as 0.036 g h⁻¹ Pa⁻¹ m⁻² for WDM + Nafion^® compared to 0.056 g h⁻¹ Pa⁻¹ m⁻² for cast Nafion^®). By normalizing the membrane properties with respect to ionomer content, it was possible to examine the properties of the Nafion^® inside the pores of the membranes. The proton conductivity (as low as 0.032 S cm⁻¹ for CG3401 + Nafion^®), effective proton mobility (as low as 3.6 × 10⁻⁴ cm² V⁻¹ s⁻¹ for CG3401 + Nafion^®), and water vapour permeability (as low as 2.7 × 10⁻⁶ g h⁻¹ Pa⁻¹ m⁻¹ for PTFE MP 0.1 + Nafion^®) of the ionomer in the membrane are also diminished compared to bulk Nafion^® due to decreased connectivity of the ionomer and a restriction in macromolecular motions caused by the pore walls. A series of porous materials with increasing pore were also examined. As the pore size of the PTFE MP materials increased from 0.1 μm to 10 μm, the proton conductivity (0.022 S cm⁻¹ to 0.041 S cm⁻¹), effective proton mobility ((4.1 to 5.6) × 10⁻⁴ cm² V⁻¹ s⁻¹), and water vapour permeability ((2.4 to 4.3) × 10⁻⁶ g h⁻¹ Pa⁻¹ m⁻¹) of the reinforced membranes improved with increasing pore size and the properties of the ionomer inside the membranes approached the value of bulk Nafion^®.     

Synthesis, characterisation and complex forming ability towards ferric ions of oligo(ether-amide)s of Jeffamines ED and chelidamic acid

New chelating oligo(ether-amide)s (CA-PE)s containing chelidamic acid residues in the main chain were prepared by reacting chelidamic acid with Jeffamines ED^® in the presence of N,N^′-dicyclohexylcarbodiimide and 4-dimethylaminopyridine. A mixture of products having one or two polyether sequences with chelidamate end-groups was obtained. It was found spectrophotometrically that CA-PE polymers formed a complex with Fe³⁺ at pH 3-6 having a maximum absorbance in the 472-495 nm range. Fe³⁺ ion complexes of CA-PE were water soluble, except Fe³⁺-CA-PE₆₀₀. The stoichiometric ratio between chelidamic acid residues of oligo(ether-amide)s CA-PE and Fe³⁺ ions was found to be 2 at pH 5 by the method of shift of equilibrium. A hydroxypyridine structure of the chelidamic acid residues in the complex was suggested.     

A comparison study between a disposable electrochemical DNA biosensor and a Vibrio fischeri-based luminescent sensor for the detection of toxicants in water samples

In the present study, a comparison between a disposable electrochemical DNA biosensor and a Vibrio fischeri-based luminescent sensor for the detection of toxicants in water samples was made.In order to realize this study, a disposable electrochemical DNA biosensor has been reported. The DNA biosensor is assembled by immobilizing double stranded Calf Thymus DNA onto the surface of a disposable carbon screen-printed electrode. The oxidation signal of the guanine base, obtained by a square wave voltammetric scan, is used as analytical signal to detect the DNA damage; the presence of low molecular weight compounds with affinity for nucleic acids is measured by their effect on the guanine oxidation peak.Wastewater samples provided during First European Interlaboratory Exercise on water toxicity in the course of the project SWIFT-WFD were analyzed, and biosensor results were compared with a currently used toxicity test ToxAlert^®100 based on the bioluminescence inhibition of Vibrio fischeri. This test have been used because is rapid, easy handling and cost effectively responses for the toxicity assessment in real water samples.The results showed a promising correlation between two tests used for the detection of toxic compounds in water samples.     

Voltammetric assay of rifampicin and isoniazid drugs, separately and combined in bulk, pharmaceutical formulations and human serum at a carbon paste electrode

The electrochemical oxidation of both the rifampicin (RIF) and isoniazid (INH) drugs has been investigated by cyclic and square-wave voltammetry in Britton-Robinson buffers (pH 2-11) at a carbon paste electrode. The oxidation of rifampicin generated a well-defined pH-dependent quasi-reversible anodic-cathodic peak couple corresponding to a mechanism involving the transfer of two electrons/two protons, typical to that of hydroquinones, in addition to an irreversible anodic peak at a more positive potential which may be due to the oxidation of phenolic hydroxyl group. For the isoniazid, an irreversible anodic peak was observed, which may be attributed to the irreversible oxidation of the amide moiety of the drug molecule. A validated square-wave adsorptive anodic stripping voltammetric procedure was described to assay the two drugs separately or combined in pharmaceutical formulations and human serum. The recoveries of RIF in rimactane^® capsules (300 mg RIF) and INH in isocid^® tablets (200 mg INH) were found to be 98.57±0.81% and 100.57±0.74%, respectively. The proposed procedure was also successfully applied to simultaneous assay of rifampicin and isoniazid drugs combined in rimactazid tablets (150 mg INH+300 mg RIF) with recoveries of 98.79±0.97% and 99.54±0.74%, respectively, without the necessity for sample pretreatment or time-consuming extraction steps prior to the analysis. The results were favorably compared to those obtained by the reported USP method. Moreover, the proposed procedure was successfully applied to simultaneous assay of both drugs in human serum samples with limits of detection and quantitation of 5×10⁻⁸ and 1.7×10⁻⁷ M for RIF and 6.1×10⁻⁸ and 2×10⁻⁷ M for INH.     

A spectrophotometric method for determination of the solubilizing activity of cellulase complexes

Summary A standardized spectrophotometric method for determination of the solubilizing activity of microbial cellulase complexes has been developed. It is based on the release of coloured compounds from microcrystalline cellulose (Avicel SF^®) dyed with Levafixbrillantrot E-2B^®.

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Eine spektrophotometrische Methode zur Bestimmung der solubilisierenden Aktivität des Cellulase-Komplexes (Kurze Mitteilung)

Zusammenfassung Es wurde eine standardisierte spektrophotometrische Methode zur Bestimmung der Aktivität des Cellulase-Komplexes von Mikroorganismen ausgearbeitet. Die Methode beruht auf der Möglichkeit, mit Levafixbrillantrot E-2 B^® gefärbte mikrokristalline Cellulose (Avicel SF^®) als Substrat zu verwenden.

     

Fractionation and physico-chemical analysis of degraded lignins from the black liquor of Eucalyptus pellita KP-AQ pulping

The degraded Eucalyptus pellita kraft lignin from the black liquor of KP-AQ pulping was precipitated directly at pH ∼2.0 without further purifying, since the lignin obtained is more representative with a whole distribution of molecular weight. The precipitated lignin was fractionated into six fractions by successive extraction with organic solvents. A comparison study of the lignin heterogeneity between the fractions was made in terms of fractional yield, content of associated polysaccharides, alkaline nitrobenzene oxidation, molecular weight distribution, ¹H NMR and ¹³C NMR spectroscopy and thermal stability. It was found that the lignin fractions contained higher associated hemicelluloses and ratios of non-condensed syringyl/guaiacyl units which were extracted by organic solvents with higher Hildebrand solubility parameters. The results from GPC and TGA showed that the polydispersity and the thermal stability of the lignin fractions increased with increasing molecular weight. In the low molecular weight fraction, small amounts of β-aryl ether bond (β-O-4) surviving the KP-AQ pulping were detected by both ¹H and ¹³C NMR spectra.     

A composite thin film optical sensor for dissolved oxygen in contaminated aqueous environments

A robust optical composite thin film dissolved oxygen sensor was fabricated by ionically trapping the dye ruthenium(II) tris(4,7-diphenyl-1,10-phenanthroline) dichloride in a blended fluoropolymer matrix consisting of Nafion^® and Aflas^®. Strong phosphorescence, which was strongly quenched by dissolved oxygen (DO), was observed when the sensor was immersed in water. The sensor was robust, optically transparent, with good mechanical properties. Fast response, of a few seconds, coupled with sensitivity of about 0.1 mg L⁻¹ (DO) over the range 0-30 mg L⁻¹ and resistance to leaching, were also exhibited by this system. The Stern-Volmer (SV) plot exhibited slight downward turning at all oxygen concentrations. A linear plot was obtained when the SV equation was modified to account for the varying sensitivity of dye molecules in the matrix to the quencher. Good long term stability was observed.     

Microwave assisted synthesis of the fragrant compound Calone 1951

Calone 1951^®, 7-methyl-benzo[b][1,4]dioxepin-3-one, possesses a strong marine, ozone note with floral nuances and is synthesised via a three-step procedure using microwave irradiation. High yields were obtained, and reaction times reduced to a few minutes, allowing for an efficient and inexpensive synthesis of Calone 1951^®.     

Radiolabeling of HER2-specific Affibody molecule with F-18

The presence of human epidermal growth factor type 2 (HER2) on 20-30% of human breast cancer is a prognostic indicator of more rapid disease progression and a therapeutic indicator for anti-HER2 monoclonal antibodies. Because the literature has demonstrated some discordance between primary and metastatic tumors in the same patient for expression of the HER2 marker, we set out to develop an imaging agent that could be used to assess the marker concentration in vivo in an individual patient. The pharmaceutical company Affibody^® AB has optimized the specificity of Affibody^® molecules for HER2. Two Affibody^® molecules, a 7 kDa and an 8 kDa protein, were designed with a single carboxy terminal cysteine in order to provide a specific location for the purposes of labeling for various types of imaging. We have prepared [¹⁸F]FBEM utilizing a coupling reaction between [¹⁸F]fluorobenzoic acid and aminoethylmaleimide. We then optimized the conjugation of this radiolabeled maleimide to the free sulfhydryl of cysteine by incubating at pH 7.4 in phosphate buffered saline containing 0.1% sodium ascorbate. An overall uncorrected yield of radiolabeled Affibody^® molecule of approximately 10% from [¹⁸F]fluoride was achieved in a 2 h synthesis. These conjugated Affibody^® molecules were obtained with a specific activity of 2.51 ± 0.92 MBq/μg. Characterization of the product by HPLC-MS supported the conjugation of [¹⁸F]FBEM with the Affibody^® molecule. The radiolabeled Affibody^® molecule retained its binding specificity as demonstrated by successful imaging of xenografts expressing HER2.     

Thermodynamic approach for studying both the retention and complexation mechanisms with hydroxy-propyl-beta-cyclodextrin of a phenoxy-propionic acid herbicide series

The retention and complexation mechanisms of a herbicide series were studied from a chromatographic approach using a novel column called “Nautilus^®”. The effects of water fraction and the hydroxy-propyl-β-cyclodextrin (HP-β-CD) concentration in the mobile phase were analysed in relation to the column temperature. Two retention models of phenoxy-propionic acid (PPA) derivatives were investigated. It was shown that the retention mechanism was led by free PPA herbicide for low HP-β-CD concentrations and by the PPA/HP-β-CD complex for the highest ones. In addition, an enthalpy-entropy compensation study revealed that both the solute retention and complexation mechanisms were independent of the number of chlorine atoms in the structure. Also the thermodynamic results showed that (1) the retention process depended on the water fraction (X) in the mobile phase and (2) the PPA/HP-β-CD complexation mechanism was shown to be entropically controlled.     

The Baeyer-Villiger oxidation of ketones with Oxone in the presence of ionic liquids as solvents

Cyclic and linear ketones were readily oxidised with Oxone^® at 40 °C in ionic liquids as solvents and short times (2.5-20 h), affording their corresponding lactones and esters in high yields (65-95%). Both, aprotic and protic ionic liquids were used. The best conversion of ketones and the highest yields of products were obtained with 1-buty-3-methylimidazolium tetrafluoroborate and 1-methylimidazolium acetate as solvents. These ionic liquids were also efficiently recycled in the Baeyer-Villiger reaction without significant loss of activity. Several factors, such as the partial solubility of KHSO₅ in the ionic liquid, its viscosity and the presence of a proton in protic ionic liquids, have an influence on the course of the reaction.     

Determination of volatile organic compounds in contaminated air using semipermeable membrane devices

Semipermeable membrane devices (SPMDs) were evaluated as passive samplers for the determination of 26 volatile organic compounds (VOCs) in contaminated air of occupational environments. A direct methodology based on the use of head-space-gas chromatography-mass spectrometry (HS-GC-MS) was developed for VOCs determinations in SPMDs, without any sample pre-treatment and avoiding the use of solvents. A desorption temperature of 150 °C for 10 min was sufficient for a sensitive VOCs determination providing limits of detection in the range of 15 ng SPMD⁻¹ for 21 of 26 studied compounds. Linear and equilibrium uptake models were established for each VOC from compound isotherms. Highly volatile compounds were slightly absorbed and moderately volatile compounds were strongly absorbed by SPMDs. This study is the first precedent of the use of SPMDs for the simultaneous sampling of a wide number of VOCs. The use of SPMDs is a simple and low cost alternative to ordinary sampling devices such as Radiello^® diffusive samplers or badge-type solid-phase supports.     

Evaluation of steviol and its glycosides in Stevia rebaudiana leaves and commercial sweetener by ultra-high-performance liquid chromatography-mass spectrometry

Stevia rebaudiana leaves contain non-cariogenic and non-caloric sweeteners (steviol-glycosides) whose consumption could exert beneficial effects on human health. Steviol-glycosides are considered safe; nonetheless, studies on animals highlighted adverse effects attributed to the aglycone steviol. The aim of the present study was to develop and validate two different ultra-high-performance liquid chromatography methods with electrospray ionization mass spectrometry (UHPLC-MS) to evaluate steviol-glycosides or steviol in Stevia leaves and commercial sweetener (Truvia^®). Steviol-glycosides identity was preliminarily established by UV spectra comparison, molecular ion and product ions evaluation, while routine analyses were carried out in single ion reaction (SIR) monitoring their negative chloride adducts. Samples were sequentially extracted by methanol, cleaned-up by SPE cartridge and the analytes separated by UHPLC HSS C₁₈ column (150 mm × 2.1 mm I.D., 1.8 μm). The use of CH₂Cl₂ added to the mobile phase as source of Cl⁻ enhance sensitivity. The LLOD for stevioside, rebaudioside A, steviolbioside and steviol was 15, 50, 10 and 1 ng ml⁻¹, respectively. Assay validation demonstrated good performances in terms of accuracy (89–103%), precision (<4.3%), repeatability (<5.7%) and linearity (40–180 mg/g). Stevioside (5.8 ± 1.3%), rebaudioside A (1.8 ± 1.2%) and rebaudioside C (1.3 ± 1.4%) were the most abundant steviol-glycosides found in samples of Stevia (n = 10) from southern Italy. Rebaudioside A was the main steviol-glycosides found in Truvia^® (0.84 ± 0.03%). The amounts of steviol-glycosides obtained by the UHPLC-MS method matched those given by the traditional LC-NH₂-UV method. Steviol was found in all the leaves extract (2.7–13.2 mg kg⁻¹) but was not detected in Truvia^® (<1 μg kg⁻¹). The proposed UHPLC-MS methods can be applied for the routine quality control of Stevia leaves and their commercial preparations.     

Evaluation and application of Diffusive Gradients in Thin Films (DGT) technique using Chelex-100, Metsorb™ and Diphonix binding phases in uranium mining environments

A new resin- Diphonix^® in Diffusive Gradients in Thin Films (DGT) technique for the determination of uranium was investigated and compared with previously used binding phases for uranium, Chelex^®-100 and Metsorb™. The DGT gel preparation and the elution procedure were optimized for the new resin. The U uptake on Diphonix^® resin gel was 97.4 ± 1.5% (batch method; [U] = 20 μg L⁻¹; 0.01 M NaNO₃; pH = 7.0 ± 0.2). The optimal eluent was found to be 1 M 1-hydroxyethane-1, 1-diphosphonic acid (HEDPA) with an elution efficiency of 80 ± 4.2%. Laboratory DGT study on U accumulation using a DGT samplers with Diphonix^® resin showed a very good performance across a wide range of pH (3–9) and ionic strength (0.001–0.7 M NaNO₃). Diffusion coefficients of uranium at different pH were determined using both, a diffusion cell and the DGT time-series, demonstrating the necessity of the implementation of the effective diffusion coefficients into U-DGT calculations. Diphonix^® resin gel exhibits greater U capacity than Chelex^®-100 and Metsorb™ binding phase gels (a Diphonix^® gel disc is not saturated, even with loading of 10.5 μmol U). Possible interferences with Ca²⁺ (up to 1.33 × 10⁻² M), PO₄³⁻${{\text{PO}}_4}^{3\mathrm{-}}$ (up to 1.72 × 10⁻⁴ M), SO₄²⁻${{\text{SO}}_4}^{2\mathrm{-}}$ (up to 4.44 × 10⁻³ M) and −HCO₃${{\text{HCO}}_3}^{\mathrm{-}}$ (up to 8.20 × 10⁻³ M) on U-DGT uptake ([U] = 20 μg L⁻¹) were investigated. No effect or minor effect of Ca²⁺, PO₄³⁻${{\text{PO}}_4}^{3\mathrm{-}}$, SO₄²⁻${{\text{SO}}_4}^{2\mathrm{-}}$, and −HCO₃${{\text{HCO}}_3}^{\mathrm{-}}$ on the quantitative measurement of U by Diphonix^®-DGT was observed. The results of this study demonstrated the DGT technique with Diphonix^® resin is a reliable and robust method for the measurement of labile uranium species under laboratory conditions.     

On the interlayer spacing collapse of Cloisite 30B organoclay

When used as a nanofiller for the preparation of polymer/clay nanocomposites (PCNs), Cloisite^® 30B (30B) often undergoes a d-spacing collapse, as demonstrated by a shift to wider angles of the XRD basal reflection. Such collapse has been variously attributed to organoclay contamination or, more often, to thermal degradation of the organic modifier with expulsion of the volatile products from the galleries. In this work, several PCNs loaded with 30B have been prepared by melt compounding, using different polymer matrices, and have subsequently been subjected to dissolution in appropriate solvents followed by precipitation in excess non-solvent and room temperature drying. An XRD analysis of the products has shown that this treatment makes the 30B basal plane reflection go back to the original angular position. These experiments indicate that, contrary to the situation prevailing when 30B is subjected to thermal treatments at temperatures well above the onset of degradation (∼180 °C), the d-spacing collapse observed after melt compounding 30B with polymer matrices at moderate temperatures is in fact a reversible phenomenon probably due to rearrangement of the alkyl chains of the clay modifier in a disposition intermediate between bilayer and monolayer.     

A new rhodamine-based dual chemosensor for Al and Cu

A new rhodamine B derivative bearing a hydrazone group has been designed and prepared. The synthesized colorimetric and fluorescent molecular chemosensor can be used as a dual probe, selectively detecting Al³⁺ and Cu²⁺ in acetonitrile solution by monitoring changes in the absorption and fluorescence spectral patterns. The results show that Al³⁺ ions can induce a greater fluorescence enhancement, while the addition of Cu²⁺ ions induces a strong UV–vis absorption enhancement with weak fluorescence. The limits of detection of Cu²⁺ and Al³⁺ were estimated to be 2.9 × 10⁻⁷ M and 8.3 × 10⁻⁹ M, respectively.     

苯乙烯三嗪衍生物的合成及在重金属离子识别中的应用

合成了2,4-二(2-噻吩乙烯基)-6-(4′-N,N-二甲氨基苯乙烯基)-1,3,5-均三嗪(2)并鉴定了其结构。在乙腈-水混合介质中,化合物2在355和416 nm处呈现双吸收峰,加入Cu2+,Hg2+和Fe3+后,均在520 nm附近形成新的吸收峰。化合物2与Cu2+、Hg2+和Fe3+均形成1∶1型配合物,其结合常数分别为1.9×105L·mol-1,6.6×103L·mol-1,2.7×103L·mol-1。对照化合物4与金属离子的光谱响应与化合物2相似,仅吸收峰的位置不同。因此,可认为化合物2和4中三嗪环中的N和噻吩环中的S与Cu2+、Hg2+和Fe3+共同配位形成了稳定的金属配合物。