Label-free detection of the aptamer binding on protein patterns using Kelvin probe force microscopy (KPFM)

Anti-lysozyme aptamers are found to preferentially bind to the edge of a tightly packed lysozyme pattern. Such edge-binding is due to the better accessibility and flexibility of the edge lysozyme molecules. Kelvin probe force microscopy (KPFM) was used to study the aptamer–lysozyme binding. Our results show that KPFM is capable of detecting the aptamer–protein binding down to the 30 nm scale. The surface potential of the aptamer–lysozyme complex is approximately 12 mV lower than that of the lysozyme. The surface potential images of the aptamer-bound lysozyme patterns have the characteristic shoulder steps around the pattern edge, which is much wider than that of a clean lysozyme pattern. These results demonstrate the potentials of KPFM as a label-free method for the detection of protein–DNA interactions. Figure Aptamers preferentially bind on the edge of a protein pattern as revealed by Kelvin force microscopy.

Electrochemical quantification of reactive oxygen and nitrogen: challenges and opportunities

Reactive oxygen species (ROS) and reactive nitrogen species (RNS) play a crucial role in chemical signaling processes of biological cells. Electrochemistry is one of the rare methods able to directly detect these species. ROS and RNS can be monitored in the local microenvironment of cells in real time at the site where the actual signaling takes place. This review presents recent advances made with amperometric electrochemical techniques. Existing challenges for the quantification of ROS and RNS in biological systems are discussed to promote the development of innovative and reliable cell-based assays. Figure Reactive oxygen and nitrogen species (ROS & RNS) are produced biological cells. An amperometric sensor is placed in close proximity. The recorded current I is used to determine fluxes of certain species.

Partition layer-modified substrates for reversible surface-enhanced Raman scattering detection of polycyclic aromatic hydrocarbons

Herein, we present progress towards an analytical sensor for polycyclic aromatic hydrocarbons (PAHs) using surface-enhanced Raman scattering (SERS) on partition layer-modified nanostructured substrates. Specifically, a 1-decanethiol monolayer has been assembled on a silver film over nanospheres substrate to concentrate PAHs within the zone of SERS detection. Both anthracene and pyrene were detected with limits of detection at 300 and 700 pM, respectively. The measured SERS spectra allowed for easy distinction of the two PAH compounds, due to varying peak locations, and insight into the partitioning mechanism. Additionally, exposure to a common environmental interferant, Suwannee River fulvic acid, did not impede the measurement of the PAHs, and the sensor is reusable after a short exposure to 1-octanol. Finally, the utility of this sensing platform for PAH detection was compared to that achievable for other classes of organic pollutants such as polychlorinated biphenyls and polybrominated diphenyl ethers. Figure SERS detection of polycyclic aromatic hydrocarbons facilitated via partition layer modified substrates.

Environmental metabolomics: new insights into earthworm ecotoxicity and contaminant bioavailability in soil

Environmental metabolomics is a growing and emerging sub-discipline of metabolomics. Studies with earthworms have progressed from the initial stages of simple contact exposure tests to detailed studies of earthworm responses in soil. Over the past decade, a variety of endogenous metabolites have been identified as potential biomarkers of contaminant exposure. Furthermore, metabolomic methods have delineated responses from sub-lethal exposure of earthworms to polycyclic aromatic hydrocarbons and metals in soil suggesting that environmental metabolomics may be used as a direct measure of contaminant bioavailability in soil. Environmental metabolomics has the potential to fill knowledge gaps related to earthworm toxicity and contaminant bioavailability. However, challenges with metabolite quantification and limited systems-level models of metabolic data require improvement before detailed models of “normal” responses can be developed and used routinely in assessment of contaminated sites. Nonetheless, environmental metabolomics is poised to improve our fundamental understanding of earthworm responses and toxicity to contaminants in soil. Figure Principal component analysis (PCA) scores plots of earthworm metabolic profiles measured by ¹H NMR spectroscopy after exposure to sub-lethal concentrations of phenanthrene in soil.

Magnetic microbead-based electrochemical immunoassays

This review provides a summary of recent works concerning electrochemical immunoassays using magnetic microbeads as a solid phase. Recent research activity has led to innovative and powerful detection strategies that have been resulted in sensitive electrochemical detection. Coupling of magnetic microbeads with highly sensitive electrochemical detection provides a useful analytical method for environmental evaluation and clinical diagnostics, etc. The huge surface area and high dispersion capability of magnetic microbeads strongly contributes towards the development of new sensitive, rapid, user-friendly, and miniaturized electrochemical immunoassay systems. Moreover, the immunocomplexes formed on the magnetic microbead surface can be easily detected without pretreatment steps such as preconcentration or purification, which are normally required for standard methods. The discussion in this review is organized in two main subjects that include magnetic-microbead-based assays using enzyme labels and nanoparticle tags. Figure SEM image of Dynabeads M-280 (12% γ-Fe₂O₃ in polystyrene, diameter is 2.8 μm)

Investigation of the magnetic properties of ferritin by AFM imaging with magnetic sample modulation

Individual ferritin molecules can be sensitively detected using magnetic sample modulation (MSM) combined with contact mode atomic force microscopy (AFM). To generate an oscillating magnetic field, an alternating current (AC) was applied to a solenoid placed within the base of the AFM sample stage. When a modulated electromagnetic field is applied to samples, ferromagnetic and paramagnetic nanomaterials are induced to vibrate. The flux of the AC electromagnetic field causes the ferritin samples to vibrate with corresponding rhythm and periodicity of the applied field. This motion can be detected and mapped using contact mode AFM with a soft, nonmagnetic cantilever. Changes in the phase and amplitude of the periodic motion of the sample are sensed by the tip to selectively map vibrating magnetic nanomaterials. Particle lithography was used to create nanopatterned test platforms of ferritin for MSM measurements. Regularly spaced structures of proteins provide precise reproducible dimensions for multiple successive surface measurements at dimensions of tens of nanometers. Figure Ring patterns of ferritin were used as nanoscale test platforms to characterize magnetic properties at the level of individual proteins with AFM imaging

Bio-inspired colorimetric detection of Hg<Superscript>2+</Superscript> and Pb<Superscript>2+</Superscript> heavy metal ions using Au nanoparticles

Heavy metal ions are highly toxic species which can cause long-term damage to biological systems. These species are known to disrupt biological events at the cellular level, cause significant oxidative damage, and are carcinogens. The production of simple, in-field detection methods that are highly sensitive for these cations is highly desirable in response to global pollution. In that regard, bio-inspired colorimetric sensing systems have been developed to detect Hg²⁺ and Pb²⁺, and other cations, down to nmol L⁻¹ concentrations. The benefits of these systems, which are reviewed herein, include cost-effective production, facile usage, and a visual color change for the detection method. Such advantages are significant positive steps for heavy metal ion detection, especially in regions where sophisticated laboratory studies are prohibited. Figure Biological-based colorimetric detection of heavy metal cations. The materials on the left are independent Au nanoparticles in solution, functionalized with heavy metal binding biomolecules, which, upon metal addition, aggregate to evolve a detectable solution color change.

Cell separation by the combination of microfluidics and optical trapping force on a microchip

We investigated properties of cells affecting their optical trapping force and successfully established a novel cell separation method based on the combined use of optical trapping force and microfluidics on a microchip. Our investigations reveal that the morphology, size, light absorption, and refractive index of cells are important factors affecting their optical trapping force. A sheath flow of sample solutions created in a microchip made sample cells flow in a narrow linear stream and an optical trap created by a highly focused laser beam captured only target cells and altered their trajectory, resulting in high-efficiency cell separation. An optimum balance between optical trapping force and sample flow rate was essential to achieve high cell separation efficiency. Our investigations clearly indicate that the on-chip optical trapping method allows high-efficiency cell separation without cumbersome and time-consuming cell pretreatments. In addition, our on-chip optical trapping method requires small amounts of sample and may permit high-throughput cell separation and integration of other functions on microchips. Figure Optical trapping in a microchannel allows high-efficiency separation of cells, e.g., dead and live HeLa cells

Food anaphylaxis

    Figure Avoidance is the primary measure in food allergy confirmed

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The effects of microbial degradation on ignitable liquids

The identification of ignitable liquid residues in fire debris is a key finding for determining the cause and origin of a suspicious fire. However, the complex mixtures of organic compounds that comprise ignitable liquids are susceptible to microbiological attack following collection of the sample. Biodegradation can result in selective removal of many of the compounds required for identification of an ignitable liquid. Such degradation has been found to occur rapidly in substrates such as soil, rotting wood, or other organic matter. Furthermore, fire debris evidence must often be stored for extended periods at room temperature prior to analysis due to case backlogs and available evidence storage. Hence, extensive damage to ignitable liquid residues by microbes poses a significant threat to subsequent laboratory work. In this work, the effects of microbial degradation of ignitable liquids in soil have been evaluated as a function of time. Key findings include the loss of n-alkanes, particularly C₉–C₁₆, which showed the most dramatic decrease in gasoline as well as the petroleum distillates, while branched alkanes remained unchanged. Monosubstituted benzenes also showed the most dramatic loss in gasoline. In the heavy petroleum distillates, n-alkanes with even carbon numbers were degraded more than n-alkanes with odd carbon numbers. Figure A “fully involved” house fire in Indianapolis, IN

Structure and chromotropic properties of mono- and binuclear mixed-ligand nickel(II) complexes containing 1,3-diketonate and polyamine ligands

Abstract  Mixed-ligand Ni^II complexes have been synthesized with 1,3-diketonate and bulky tri- or tetra-amine ligands. Their structures were determined by X-ray crystallography, and solvatochromic behavior was examined by UV–vis–NIR spectroscopy. Steric effects of the bulky ligands on the coordination distances and spectral properties are discussed. Graphical Abstract  

Formation of novel 1,3-thiazole- and 1,2-thiazole-fused aporphines and study on the simultaneously occurring benzothiazole–benzisothiazole-type isomerization

Abstract  The synthesis and acid-catalyzed rearrangement of novel thiazolomorphinandienes have been presented. An isomerization was observed simultaneously with the backbone transformation. An extensive study was performed to determine the major effects of the isomerization of 2′-alkyl- and aryl-substituted thiazoloapocodeines into 3′-alkyl- and arylisothiazoloapocodeines. The obtained results provided another practical example of the reversible benzisothiazole–benzothiazole-type isomerization emphasizing the determining role of the thermal effects in the occurrence of these isomerization products. The obtained experimental results and the proposed mechanism were in agreement with the calculated DFT data. Graphical abstract  

Monitoring of vesicular exocytosis from single cells using micrometer and nanometer-sized electrochemical sensors

Communication between cells by release of specific chemical messengers via exocytosis plays crucial roles in biological process. Electrochemical detection based on ultramicroelectrodes (UMEs) has become one of the most powerful techniques in real-time monitoring of an extremely small number of released molecules during very short time scales, owing to its intrinsic advantages such as fast response, excellent sensitivity, and high spatiotemporal resolution. Great successes have been achieved in the use of UME methods to obtain quantitative and kinetic information about released chemical messengers and to reveal the molecular mechanism in vesicular exocytosis. In this paper, we review recent developments in monitoring exocytosis by use of UMEs-electrochemical-based techniques including electrochemical detection using micrometer and nanometer-sized sensors, scanning electrochemical microscopy (SECM), and UMEs implemented in lab-on-a-chip (LOC) microsystems. These advances are of great significance in obtaining a better understanding of vesicular exocytosis and chemical communications between cells, and will facilitate developments in many fields, including analytical chemistry, biological science, and medicine. Furthermore, future developments in electrochemical probing of exocytosis are also proposed. Figure In this paper, we review recent developments in monitoring the exocytosis by use of UMEs-electrochemical-based techniques including electrochemical detection using micrometer and nanometer-sized sensors, Scanning Electrochemical Microscopy (SECM) and UMEs implemented in lab-on-a-chip (LOC) microsystems. These advances are of great significance in obtaining a better understanding of vesicular exocytosis and chemical communications between cells, and will facilitate developments in many fields including analytical chemistry, biological science and medicine. Furthermore, future developments in electrochemical probing of exocytosis are proposed.

Internal correction of hafnium oxide spectral interferences and mass bias in the determination of platinum in environmental samples using isotope dilution analysis

A method has been developed for the accurate determination of platinum by isotope dilution analysis, using enriched ¹⁹⁴Pt, in environmental samples containing comparatively high levels of hafnium without any chemical separation. The method is based on the computation of the contribution of hafnium oxide as an independent factor in the observed isotope pattern of platinum in the spiked sample. Under these conditions, the ratio of molar fractions between natural abundance and isotopically enriched platinum was independent of the amount of hafnium present in the sample. Additionally, mass bias was corrected by an internal procedure in which the regression variance was minimised. This was possible as the mass bias factor for hafnium oxide was very close to that of platinum. The final procedure required the measurement of three platinum isotope ratios (192/194, 195/194 and 196/194) to calculate the concentration of platinum in the sample. The methodology has been validated using the reference material “BCR-723 road dust” and has been applied to different environmental matrices (road dust, air particles, bulk wet deposition and epiphytic lichens) collected in the Aspe Valley (Pyrenees Mountains). A full uncertainty budget, using Kragten’s spreadsheet method, showed that the total uncertainty was limited only by the uncertainty in the measured isotope ratios and not by the uncertainties of the isotopic composition of platinum and hafnium. Figure Simultaneous correction of hafnium oxide spectral interferences and mass bias in the determination of platinum in environmental samples using isotope dilution analysis Electronic supplementary material  The online version of this article (doi:) contains supplementary material, which is available to authorized users.

Synthesis and dopamine receptor binding affinity of 4H-thiochromenoapomorphines

Abstract  The synthesis of 4H-thiochromene derivatives of apomorphines, a novel class of isoquinoline alkaloid-related compounds, has been achieved by different O-dealkylation methods applied on previously published heteroring-fused aporphinoids. Detailed DFT study has been presented regarding the mechanism of the L-selectride-mediated multiple O-dealkylation of a seven-ring aporphine analogue. Dopamine-binding tests confirmed the essential function of 11-hydroxy moiety of the aporphine skeleton and revealed a remarkable D₁ over D₂ specificity for the derivative having the 4H-thiochromene ring system attached to positions 2 and 3 of the aporphine backbone. Graphical Abstract  

Redox cycling in nanofluidic channels using interdigitated electrodes

Amperometric detection is ideally suited for integration into micro- and nanofluidic systems as it directly yields an electrical signal and does not necessitate optical components. However, the range of systems to which it can be applied is constrained by the limited sensitivity and specificity of the method. These limitations can be partially alleviated through the use of redox cycling, in which multiple electrodes are employed to repeatedly reduce and oxidize analyte molecules and thereby amplify the detected signal. We have developed an interdigitated electrode device that is encased in a nanofluidic channel to provide a hundred-fold amplification of the amperometric signal from paracetamol. Due to the nanochannel design, the sensor is resistant to interference from molecules undergoing irreversible redox reactions. We demonstrate this selectivity by detecting paracetamol in the presence of excess ascorbic acid. Figure  

Matisse to Picasso: a compositional study of modern bronze sculptures

Inductively coupled plasma-optical emission spectroscopy (ICP-OES) was used to determine the bulk metal elemental composition of 62 modern bronze sculptures cast in Paris in the first half of the twentieth century from the collections of The Art Institute of Chicago and the Philadelphia Museum of Art. As a result, a comprehensive survey of the alloy composition of the sculptures of many prominent European artists of the early twentieth century is presented here for the first time. The sculptures in this study consist of predominantly copper with two main alloying elements (zinc and tin). By plotting the concentrations of these two elements (zinc and tin) against each other for all the sculptures studied, three clusters of data become apparent: (A) high-zinc brass; (B) low-zinc brass; (C) tin bronze. These clusters correlate to specific foundries, which used specific casting methods (sand or lost wax) that were influenced by individual preferences and technical skills of the foundry masters. For instance, the high-zinc brass alloys (with the highest levels of tin and zinc and the lowest melting temperature) correspond to most of the Picasso sculptures, correlate with the Valsuani foundry, and are associated with the most recent sculptures (post-WWII) and with the lost-wax casting method. By expanding the ICP-OES database of objects studied, these material correlations may become useful for identifying, dating, or possibly even authenticating other bronzes that do not bear foundry marks. Figure   Electronic supplementary material  The online version of this article (doi:) contains supplementary material, which is available to authorized users.

Characterizing ion mobility-mass spectrometry conformation space for the analysis of complex biological samples

The conformation space occupied by different classes of biomolecules measured by ion mobility-mass spectrometry (IM-MS) is described for utility in the characterization of complex biological samples. Although the qualitative separation of different classes of biomolecules on the basis of structure or collision cross section is known, there is relatively little quantitative cross-section information available for species apart from peptides. In this report, collision cross sections are measured for a large suite of biologically salient species, including oligonucleotides (n = 96), carbohydrates (n = 192), and lipids (n = 53), which are compared to reported values for peptides (n = 610). In general, signals for each class are highly correlated, and at a given mass, these correlations result in predicted collision cross sections that increase in the order oligonucleotides < carbohydrates < peptides < lipids. The specific correlations are described by logarithmic regressions, which best approximate the theoretical trend of increasing collision cross section as a function of increasing mass. A statistical treatment of the signals observed within each molecular class suggests that the breadth of conformation space occupied by each class increases in the order lipids < oligonucleotides < peptides < carbohydrates. The utility of conformation space analysis in the direct analysis of complex biological samples is described, both in the context of qualitative molecular class identification and in fine structure examination within a class. The latter is demonstrated in IM-MS separations of isobaric oligonucleotides, which are interpreted by molecular dynamics simulations. Figure Potential for performing simultaneous “omics” through the separation of biomolecular classes on the basis of structure and mass using ion mobility-mass spectrometry Electronic supplementary material  The online version of this article (doi:) contains supplementary material, which is available to authorized users.

Imploded bilirubins: synthesis and properties of 10-nor-mesobilirubin-XIIIα and analogs

Abstract  Six 10-nor-bilirubin analogs have been synthesized and investigated. Lacking the C(10) CH₂ group, these linear tetrapyrroles have a bipyrrole core rather than a dipyrrylmethane core and thus a different shape. Whereas the propionic acid groups of bilirubin are well engaged in intramolecular hydrogen bonding to the dipyrrinones, molecular modeling studies of the 10-nor-rubins predict that propionic acid chains are too short to engage the CO₂H hydrogen fully in intramolecular hydrogen bonding with the dipyrrinones. Butyric acid chains, however, can and do lead to a stabilized conformation with a bipyrrole dihedral angle of approximately 115°. Spectroscopic studies verify the predictions and vapor pressure osmometry indicates that the 10-nor-rubins with butyric acids are monomeric in CHCl₃. Graphical abstract  

Sequential preconcentration by coupling of field amplified sample injection with pseudo isotachophoresis–acid stacking for analysis of alkaloids in capillary electrophoresis

A novel on-column sequential preconcentration method based on the combination of field-amplified sample injection induced by acetonitrile and pseudo isotachophoresis (ITP)–acid stacking is developed for simply but efficiently concentrating alkaloid cations in a high-salt sample matrix in capillary electrophoresis. Acetonitrile (70%) added to a sample solution with a high-salt sample matrix not only induces field-amplified sample stacking by decreasing conductivity but also acts as a termination reagent in the succeeding pseudo ITP. After sample injection had been completed, a plug of H⁺ was injected electrokinetically and a neutralization reaction between H⁺ and tartrate from the buffer solution produced a low conductivity zone, in which the injected analyte cations were further concentrated. With the sequential preconcentration method, a 3 orders of magnitude detection sensitivity (1,400-fold) increase could be observed compared with the conventional electrokinetic injection method, without compromising separation efficiency and peak shape, and detection limits of 0.1 ng/mL for myosmine and 0.3 ng/mL for anabasine with the conditions selected were achieved. The calibration curves demonstrated good linearity in the concentration ranges 1.3–600 ng/mL for myosmine and 4.9–900 ng/mL for anabasine, respectively. The proposed method has been used to analyze successfully trace alkaloids in cigarette samples. Figure Sequential preconcentration processes: a sample injection; b introduction of HCl; c capillary zone electrophoresis separation. A ⁻ tartrate, white circles acetonitrile, black circles Na⁺, sample zone, myosmine, anabasine