Paper-based microfluidic devices for analysis of clinically relevant analytes present in urine and saliva

We report the use of paper-based microfluidic devices fabricated from a novel polymer blend for the monitoring of urinary ketones, glucose, and salivary nitrite. Paper-based devices were fabricated via photolithography in less than 3 min and were immediately ready for use for these diagnostically relevant assays. Patterned channels on filter paper as small as 90 μm wide with barriers as narrow as 250 μm could be reliably patterned to permit and block fluid wicking, respectively. Colorimetric assays for ketones and nitrite were adapted from the dipstick format to this paper microfluidic chip for the quantification of acetoacetate in artificial urine, as well as nitrite in artificial saliva. Glucose assays were based on those previously demonstrated (Martinez et al., Angew Chem Int Ed 8:1318–1320, 1; Martinez et al., Anal Chem 10:3699–3707, 2; Martinez et al., Proc Nat Acad Sci USA 50:19606–19611, 3; Lu et al., Electrophoresis 9:1497–1500, 4; Abe et al., Anal Chem 18:6928–6934, 5). Reagents were spotted on the detection pad of the paper device and allowed to dry prior to spotting of samples. The ketone test was a two-step reaction requiring a derivitization step between the sample spotting pad and the detection pad, thus for the first time, confirming the ability of these paper devices to perform online multi-step chemical reactions. Following the spotting of the reagents and sample solution onto the paper device and subsequent drying, color images of the paper chips were recorded using a flatbed scanner, and images were converted to CMYK format in Adobe Photoshop CS4 where the intensity of the color change was quantified using the same software. The limit of detection (LOD) for acetoacetate in artificial urine was 0.5 mM, while the LOD for salivary nitrite was 5 μM, placing both of these analytes within the clinically relevant range for these assays. Calibration curves for urinary ketone (5 to 16 mM) and salivary nitrite (5 to 2,000 μM) were generated. The time of device fabrication to the time of test results was about 25 min.     

A selective intramolecular 5-exo-dig or 6-endo-dig cyclization en route to 2-furanone or 2-pyrone containing tricyclic scaffolds

Ringfused bicyclic 2-pyridones exhibit interesting biological properties against pili assembly in uropathogenic Escherichia coli (Pinkner, J. S. et al. Proc. Natl. Acad. Sci. U. S. A.2006, 103, 17897-17902; ?berg, V. et al. Org. Biomol. Chem.2007, 5, 1827-1834) as well as curli formation (Cegelski, L. et al. Nat. Chem. Biol.2009, 5, 913-919). In the search for new ring-fused central fragments, highly selective synthetic routes to the 2-furanone or 2-pyrone containing tricyclic scaffolds 1 and 2 have been developed.     

Complexation trends and binding constants between dextrin oligomers and small molecules as measured through affinity capillary electrophoresis

Quantitative aspects of a previously reported pre-equilibration affinity/capillary electrophoretic methodology (Hong, M., et al., Anal. Chem. 1998, 70, 3590-3597) were studied using fluorescently labeled oligosaccharides and analgesic drugs. Frontal analysis capillary electrophoresis (FA-CE) was investigated for these interaction systems. In order to fulfill certain FA requirements, the analysis conditions of the sugar-drug combinations had to be adjusted individually. Only after the establishment of these conditions, acceptable binding data (association constants) could be obtained. The constants are in the range of weak hydrogen bonding and are comparable to the constants that were independently obtained through 1H nuclear magnetic resonance (NMR) spectroscopy.     

Lactose does not interfere with the analysis of sialic acids as their 1,2-diamino-4,5-methylenedioxybenzene derivatives

In 2007, Martin et al. developed a method for the analysis of sialic acids by HPLC following 1,2-diamino-4,5-methylenedioxybenzene (DMB) derivatisation (Martín et al., Anal Bioanal Chem 387:2943–2949, 2007). Within the article, the authors noted that lactose interfered with the analysis, giving erroneously high results when lactose-containing products were analysed. Such an observation is important when analysing milk-based products, yet was contradictory to the observations of Nakamura et al. (Chem Pharm Bull 35(2):687–692, 1987) who demonstrated that DMB was specific for α-keto acids and did not react with simple sugars such as glucose or lactose. In order to clarify the situation, this phenomenon was investigated and it was confirmed that lactose does not interfere with the analysis. However, it was found that most commercial preparations of lactose do contain small amounts of sialic acids, either as the free monosaccharide or bound to lactose in the form of 3′- and 6′-sialyllactose.     

Deconstructing green fluorescent protein

Green fluorescent protein (GFP) has been reassembled from two pieces, a large fragment 214 amino acids in length that is produced recombinantly (GFP 1-10) and a short synthetic peptide corresponding to the 11th stave of the beta-barrel that is 16 amino acids long (synthetic GFP 11), following a system developed by Waldo and co-workers (Cabantous, S.; et al. Nat. Biotechnol. 2005, 23, 102-7) as an in vivo probe for protein association and folding. We demonstrate that the reassembled protein has identical absorption and excited-state proton transfer dynamics as a whole protein of the identical sequence. We show that the reassembled protein can be taken apart and the peptide replaced with a different synthetic peptide designed to perturb the chromophore absorption. Thus, this semisynthetic reassembly process offers a general route for studying the assembly of the beta-barrel as well as the introduction of unnatural amino acids.     

Application of GC-PPC-SAFT EoS to amine mixtures with a predictive approach

The GC-PPC-SAFT equation of state (EoS) is a combination of a group contribution method [S. Tamouza et al., Fluid Phase Equilib. 222-223 (2004) 67-76; S. Tamouza et al., Fluid Phase Equilib. 228-229 (2005) 409-419] and the PC-SAFT EoS [J. Gross, G. Sadowski, Ind. Eng. Chem. Res. 40 (2001) 1244-1260] which was adapted to the polar molecules [D. Nguyen-Huynh et al., Fluid Phase Equilib. 264 (2008) 62-75]. It is here applied to the vapour pressure and liquid molar volume of primary, secondary and tertiary amines and their mixtures with n-alkanes, primary and secondary alcohols, using previously published group parameters. The mixing enthalpy is also evaluated for the binary systems. Binary interaction parameters k_ij are computed using a group-contribution pseudo-ionization energy, as proposed by Nguyen-Huynh [D. Nguyen-Huynh et al., Ind. Eng. Chem. Res. 47 (2008) 8847-8858]. A unique corrective parameter for the cross-association energy between amines and alcohols is used.The agreement with experimental data in correlation and prediction were found rather encouraging. The mean absolute average deviation (AAD) on bubble pressure is about 3.5% for pure amines. The mean AAD on the vapour-liquid equilibria (VLE) are respectively 2.2% and 5.5% for the amine mixtures with n-alkanes and alcohols. The AADs on saturated liquid volume are about 0.7% for the pure compounds and 0.9% for the mixtures. Prediction results are qualitatively and quantitatively accurate and they are comparable to those obtained with GC-PPC-SAFT on previously investigated systems.     

Electron Capture,Collision-Induced,and Electron Capture-Collision Induced Dissociation in Q-TOF

Recently, we demonstrated that a radio-frequency-free electromagnetostatic (rf-free EMS) cell could be retrofitted into a triple quad mass spectrometer to allow electron-capture dissociation (ECD) without the aid of cooling gas or phase-specific electron injection into the cell (Voinov et al., Rapid Commun Mass Spectrom 22, 3087–3088, 2008; Voinov et al., Anal Chem 81, 1238–1243, 2009). Subsequently, we used our rf-free EMS cell in the same instrument platform to demonstrate ECD occurring in the same space and at the same time with collision-induced dissociation (CID) to produce golden pairs and even triplets from peptides (Voinov et al., Rapid Commun Mass Spectrom 23, 3028–3030, 2009). In this report, we demonstrate that ECD and CID product-ion mass spectra can be recorded at high resolution with flexible control of fragmentation processes using a newly designed cell installed in a hybrid Q-TOF tandem mass spectrometer.     

Near infrared spectra (4000-10 500 cm-1) of phenol-OH and phenol-OD in carbon tetrachloride

The near infrared spectra (3800-10 500 cm(-1) of phenol-OH and phenol-OD are studied in carbon tetrachloride solution. The bandwidth of the v(OH) and v(OD) stretching vibrations increases with the vibrational quantum number in contrast to results obtained by nonresonant ionization spectroscopy (S.I. Ishiuchi et al., Chem. Phys. Lett. 283 (1998) 243). The bandwidth of the v(CH) vibrations obtained by a deconvolution procedure also increases with the frequencies associated with the vibrational transitions. The anharmonicity of the v(CH) vibrations ranges between 51 and 72 cm(-1). Numerous absorptions are observed in the near infrared spectra. These absorptions are tentatively assigned to combinations involving the fundamental transitions which have been recently calculated at different levels of theory (D. Michalska et al., J. Phys. Chem. 100 (1996) 17786). The experimental, theoretical and harmonic v(OH) and vi(CH) frequencies are compared.     

Diffusion in linear porous media with periodic entropy barriers: A tube formed by contacting spheres

The problem of transport in quasi-one-dimensional periodic structures has been studied recently by several groups [D. Reguera et al., Phys. Rev. Lett.96, 130603 (2006); P. S. Burada et al., Phys. Rev. E75, 051111 (2007); B. Q. Ai and L. G. Liu, ibid.74, 051114 (2006); B. Q. Ai et al., ibid.75, 061126 (2007); B. Q. Ai and L. G. Liu, J. Chem. Phys.126, 204706 (2007); 128, 024706 (2008); E. Yariv and K. D. Dorfman, Phys. Fluids19, 037101 (2007); N. Laachi et al., Europhys. Lett.80, 50009 (2007); A. M. Berezhkovskii et al., J. Chem. Phys.118, 7146 (2003); 119, 6991 (2003)]. Using the concept of "entropy barrier" [R. Zwanzig, J. Phys. Chem.96, 3926 (1992)] one can classify such structures based on the height of the entropy barrier. Structures with high barriers are formed by chambers, which are weakly connected with each other because they are connected by small apertures. To escape from such a chamber a diffusing particle has to climb a high entropy barrier to find an exit that takes a lot of time [I. V. Grigoriev et al., J. Chem. Phys.116, 9574 (2002)]. As a consequence, the particle intrachamber lifetime tau(esc) is much larger than its intrachamber equilibration time, tau(rel), tau(esc)>tau(rel). When the aperture is not small enough, the intrachamber escape and relaxation times are of the same order and the hierarchy fails. This is the case of low entropy barriers. Transport in this case is analyzed in the works of Schmid and co-workers, Liu and co-workers, and Dorfman and co-workers, while the work of Berezhkovskii et al. is devoted to diffusion in the case of high entropy barriers.     

A new reaction path for the C + NO reaction: dynamics on the 4A' potential-energy surface

We present a new reaction path without significant barriers for the C + NO reaction, forming ground state N((4)S) and CO. Electronic structure (CASPT2) calculations have been performed for the two lowest (4)A' states of the CNO system. The lowest of these states shows no significant barriers against reaction in the C + NO or O + CN channels. This surface has been fitted to an analytical function using a many-body expansion. Using this surface, and the previously published (2)A' and (2)A' surfaces [Andersson et al., Phys. Chem. Chem. Phys., 2000, 2, 613; Andersson et al., Chem. Phys., 2000, 259, 99], we have performed quasiclassical trajectory (QCT) calculations, obtaining rate coefficients for the C((3)P) + NO(X(2)Pi) --> CO(X(1)Sigma(+)) + N((4)S,(2)D) and C((3)P) + NO(X(2)Pi) --> O((3)P) + CN(X(2)Sigma(+)) reactions. We have also simulated the crossed molecular beam experiments of Naulin et al. [Chem. Phys., 1991, 153, 519] The inclusion of the (4)A' surface in the QCT calculations gives excellent agreement with experiments. This is the first time an adiabatic pathway from C((3)P) + NO(X(2)Pi) to CO(X(1)Sigma(+))+N((4)S) has been reported.     

A two-dimensional gel protein database of noncultured total normal human epidermal keratinocytes: identification of proteins strongly up-regulated in psoriatic epidermis

A two-dimensional (2-D) gel database of proteins from noncultured total normal human epidermal keratinocytes has been established. A total of 1449 [35S]methionine labelled proteins (1112 isoelectric focusing, 337 nonequilibrium pH gradient electrophoresis) were resolved and recorded using computer assisted (PDQ-SCAN and PDQUEST software) 2-D gel electrophoresis. By matching the protein patterns of total keratinocytes and transformed human amnion cells (master database; Celis et al., Leukemia 1988, 2, 561-602) as well as by 2-D immunoblotting and microsequencing of keratinocyte proteins, it was possible to identify 72 polypeptides in the keratinocyte database. The database also includes data on polypeptides that are synthesized at a higher level by keratinocytes enriched in basal cells, and on six secreted proteins which are produced, albeit at a reduced rate, by normal keratinocytes and that are strongly up-regulated in psoriatic epidermis (Celis et al., FEBS Letters, in press).     

Synthesis, structure, photophysical and electrochemiluminescence properties of Re(I) tricarbonyl complexes incorporating pyrazolyl-pyridyl-based ligands

Three rhenium carbonyl complexes 1-3 were synthesized by reaction of the appropriate bidentate pyrazolyl-pyridyl-based ligand L1, L2 (L1 = 2-[1-{4-(bromomethyl)benzyl}-1H-pyrazol-3-yl]pyridine; L2 = 1,4-bis(3-(2-pyridyl)pyrazol-1-ylmethyl)benzene) with [Re(CO)(5)Cl] in toluene. They were characterized by elemental analyses, ESI-MS, (1)H spectroscopy, and X-ray crystallography for 1 and 2. Compounds 1-3 exhibit bright yellow-green luminescence in the solid state and in solution at 298 K with the lifetimes in the microsecond range. It is noteworthy that the luminescent quantum efficiencies of compounds 1-3 are between 0.040 and 0.051, which are much higher than that of the [Re(bpy)(CO)(3)Cl] complex (= 0.019) (M. M. Richter et al., Anal. Chem., 1996, 68, 4370; J. Van Houten et al., J. Am. Chem. Soc., 1976, 98, 4853). Electrogenerated chemiluminescence (ECL) was observed in solutions of these complexes in the absence or presence of coreactant tri-n-propylamine (TPrA) or 2-(dibutylamino)ethanol (DBAE) by stepping the potential of a Pt disk working electrode. The ECL spectra are identical to the photoluminescence spectra, indicating that the chemical reactions following electrochemical oxidation or reduction form the same (3)MLCT excited states as that generated in the photoluminescence experiments. In most cases, the ECL quantum efficiencies of complexes 1-3 are comparable to that of the [Re(L)(CO)(3)Cl] (L = bpy or phen) system. Oxygen tends to substantially decrease ECL intensities of the three rhenium complexes-TPrA system, which could allow them to be used as oxygen sensors.     

Adiabatic single scan two-dimensional NMR spectrocopy

New excitation schemes, based on the use adiabatic pulses, for single scan two-dimensional NMR experiments (Frydman et al., Proc. Nat. Acad. Sci. 2002, 99, 15 858-15 862) are introduced. The advantages are discussed. Applications in homo- and heteronuclear experiments are presented.     

Atmospheric pressure glow discharge desorption mass spectrometry for rapid screening of pesticides in food

Flowing afterglow atmospheric pressure glow discharge tandem mass spectrometry (APGD-MS/MS) is used for the analysis of trace amounts of pesticides in fruit juices and on fruit peel. The APGD source was rebuilt after Andrade et al. (Andrade et al., Anal. Chem. 2008; 80: 2646-2653; 2654-2663) and mounted onto a hybrid quadrupole time-of-flight mass spectrometer. Apple, cranberry, grape and orange juices as well as fruit peel and salad leafs were spiked with aqueous solutions containing trace amounts of the pesticides alachlor, atrazine, carbendazim, carbofuran, dinoseb, isoproturon, metolachlor, metolcarb, propoxur and simazine. Best limits of determination (LODs) of pesticides in the fruit juices were achieved for metolcarb (1 microg/L in apple juice), carbofuran and dinoseb (2 microg/L in apple juice); for the analysis of apple skin best LODs were 10 pg/cm(2) of atrazine, metolcarb and propoxur which corresponds to an estimated concentration of 0.01 microg/kg apple, taking into account the surface area and the weight of the apple. The measured LODs were within or below the allowed maximum residue levels (MRLs) decreed by the European Union (1-500 microg/kg for pesticides in fruit juice and 0.01-5 microg/kg for apple skin). No sample pretreatment (extraction, pre-concentration, chromatographic separation) was necessary to analyze these pesticides by direct desorption/ionization using APGD-MS and to identify them using MS/MS. This makes APGD-MS a powerful high-throughput tool for the investigation of very low amounts of pesticides in fruit juices and on fruit peel/vegetable skin. Copyright (c) 2008 John Wiley & Sons, Ltd.     

Quantum Monte Carlo calculations of the dissociation energy of the water dimer

We report diffusion quantum Monte Carlo (DMC) calculations of the equilibrium dissociation energy D(e) of the water dimer. The dissociation energy measured experimentally, D(0), can be estimated from D(e) by adding a correction for vibrational effects. Using the measured dissociation energy and the modern value of the vibrational energy Mas et al., [J. Chem. Phys. 113, 6687 (2000)] leads to D(e)=5.00+/-0.7 kcal mol(-1), although the result Curtiss et al., [J. Chem. Phys. 71, 2703 (1979)] D(e)=5.44+/-0.7 kcal mol(-1), which uses an earlier estimate of the vibrational energy, has been widely quoted. High-level coupled cluster calculations Klopper et al., [Phys. Chem. Chem. Phys. 2, 2227 (2000)] have yielded D(e)=5.02+/-0.05 kcal mol(-1). In an attempt to shed new light on this old problem, we have performed all-electron DMC calculations on the water monomer and dimer using Slater-Jastrow wave functions with both Hartree-Fock approximation (HF) and B3LYP density functional theory single-particle orbitals. We obtain equilibrium dissociation energies for the dimer of 5.02+/-0.18 kcal mol(-1) (HF orbitals) and 5.21+/-0.18 kcal mol(-1) (B3LYP orbitals), in good agreement with the coupled cluster results.     

Electronic structure and spectroscopy of "superoxidized" iron centers in model systems: theoretical and experimental trends

Recent advances in synthetic chemistry have led to the discovery of "superoxidized" iron centers with valencies Fe(v) and Fe(vi) [K. Meyer et al., J. Am. Chem. Soc., 1999, 121, 4859-4876; J. F. Berry et al., Science, 2006, 312, 1937-1941; F. T. de Oliveira et al., Science, 2007, 315, 835-838.]. Furthermore, in recent years a number of high-valent Fe(iv) species have been found as reaction intermediates in metalloenzymes and have also been characterized in model systems [C. Krebs et al., Acc. Chem. Res., 2007, 40, 484-492; L. Que, Jr, Acc. Chem. Res., 2007, 40, 493-500.]. These species are almost invariably stabilized by a highly basic ligand X(n-) which is either O(2-) or N(3-). The differences in structure and bonding between oxo- and nitrido species as a function of oxidation state and their consequences on the observable spectroscopic properties have never been carefully assessed. Hence, fundamental differences between high-valent iron complexes having either Fe=O or Fe=N multiple bonds have been probed computationally in this work in a series of hypothetical trans-[FeO(NH(3))(4)OH](+/2+/3+) (1-3) and trans-[FeN(NH(3))(4)OH](0/+/2+) (4-6) complexes. All computational properties are permeated by the intrinsically more covalent character of the Fe=N multiple bond as compared to the Fe=O bond. This difference is likely due to differences in Z* between N and O that allow for better orbital overlap to occur in the case of the Fe=N multiple bond. Spin-state energetics were addressed using elaborate multireference ab initio computations that show that all species 1-6 have an intrinsic preference for the low-spin state, except in the case of 1 in which S=1 and S=2 states are very close in energy. In addition to M?ssbauer parameters, g-tensors, zero-field splitting and iron hyperfine couplings, X-ray absorption Fe K pre-edge spectra have been simulated using time-dependent DFT methods for the first time for a series of compounds spanning the high-valent states +4, +5, and +6 for iron. A remarkably good correlation of these simulated pre-edge features with experimental data on isolated high-valent intermediates has been found, allowing us to assign the main pre-edge features to excitations into the empty Fe d(z(2)) orbital, which is able to mix with Fe 4p(z), allowing an efficient mechanism for the intensification of pre-edge features.     

C30 stationary phases for the analysis of food by liquid chromatography

The introduction of a polymeric C₃₀ liquid chromatographic column by Sander et al. [Anal. Chem., 66 (1994) 1667] designed for the separation of carotenoid isomers, has led to the development of improved analytical methods for these compounds. Subsequent commercial availability of polymerically bonded C₃₀ columns has facilitated these advances, and applications to a wide variety of separation problems with biological samples have been described. This report provides a comprehensive review of applications of polymeric C₃₀ columns, utilized in the determination of carotenoids, retinoids, and other nutrients and related compounds in complex, natural-matrix samples.     

Variable selection and specification of robust QSAR models from multicollinear data: arylpiperazinyl derivatives with affinity and selectivity for α<Subscript>2</Subscript>-adrenoceptors

Two QSAR models have been identified that predict the affinity and selectivity of arylpiperazinyl derivatives for alpha1 and alpha2 adrenoceptors (ARs). The models have been specified and validated using 108 compounds whose structures and inhibition constants (Ki) are available in the literature [Barbaro et al., J. Med. Chem., 44 (2001) 2118; Betti et al., J. Med. Chem., 45 (2002) 3603; Barbaro et al., Bioorg. Med. Chem., 10 (2002) 361; Betti et al., J. Med. Chem., 46 (2003) 3555]. One hundred and forty-seven predictors have been calculated using the Cerius 2 software available from Accelrys. This set of variables exhibited redundancy and severe multicollinearity, which had to be identified and removed as appropriate in order to obtain robust regression models free of inflated errors for the beta estimates - so-called bouncing betas. Those predictors that contained information relevant to the alpha2 response were identified on the basis of their pairwise linear correlations with affinity (-log Ki) for alpha2 adrenoceptors; the remaining variables were discarded. Subsequent variable selection made use of Factor Analysis (FA) and Unsupervised Variable Selection (UzFS). The data was divided into test and training sets using cluster analysis. These two sets were characterised by similar and consistent distributions of compounds in a high dimensional, but relevant predictor space. Multiple regression was then used to determine a subset of predictors from which to determine QSAR models for affinity to alpha2-ARs. Two multivariate procedures, Continuum Regression (the Portsmouth formulation) and Canonical Correlation Analysis (CCA), have been used to specify models for affinity and selectivity, respectively. Reasonable predictions were obtained using these in silico screening tools.