The improved performance of MALDI‐TOF MS on the analysis of herbal saponins by using DHB‐GO composite matrix

Matrix‐assisted laser desorption/ionization time‐of‐flight mass spectrometry (MALDI‐TOF MS) is an excellent analytical technique for rapid analysis of a variety of molecules with straightforward sample pretreatment. The performance of MALDI‐TOF MS is largely dependent on matrix type, and the development of novel MALDI matrices has aroused wide interest. Herein, we devoted to seek more robust MALDI matrix for herbal saponins than previous reported, and ginsenoside Rb1, Re, and notoginsenoside R1 were used as model saponins. At the beginning of the present study, 2,5‐dihydroxybenzoic acid (DHB) was found to provide the highest intensity for saponins in four conventional MALDI matrices, yet the heterogeneous cocrystallization of DHB with analytes made signal acquisition somewhat “hit and miss.” Then, graphene oxide (GO) was proposed as an auxiliary matrix to improve the uniformity of DHB crystallization due to its monolayer structure and good dispersion, which could result in much better shot‐to‐shot and spot‐to‐spot reproducibility of saponin analysis. The satisfactory precision further demonstrated that minute quantities of GO (0.1 μg/spot) could greatly reduce the risk of instrument contamination caused by GO detachment from the MALDI target plate under vacuum. More importantly, the sensitivity and linearity of the standard curve for saponins were improved markedly by DHB‐GO composite matrix. Finally, the application of detecting the Rb1 in complex biological sample was exploited in rat plasma and proved it applicable for pharmacokinetic study quickly. This work not only opens a new field for applications of DHB‐GO in herbal saponin analysis but also offers new ideas for the development of composite matrices to improve MALDI MS performance.     

Periodic Mesoporous Organosilica with Molecular‐Scale Ordering Self‐Assembled by Hydrogen Bonds

Nanoporous materials with functional frameworks have attracted attention because of their potential for various applications. Silica‐based mesoporous materials generally consist of amorphous frameworks, whereas a molecular‐scale lamellar ordering within the pore wall has been found for periodic mesoporous organosilicas (PMOs) prepared from bridged organosilane precursors. Formation of a “crystal‐like” framework has been expected to significantly change the physical and chemical properties of PMOs. However, until now, there has been no report on other crystal‐like arrangements. Here, we report a new molecular‐scale ordering induced for a PMO. Our strategy is to form pore walls from precursors exhibiting directional H‐bonding interaction. We demonstrate that the H‐bonded organosilica columns are hexagonally packed within the pore walls. We also show that the H‐bonded pore walls can stably accommodate H‐bonding guest molecules, which represents a new method of modifying the PMO framework.     

Size separation of graphene oxide using preparative free‐flow electrophoresis

Graphene oxide nanosheets often bear a wide size distribution. However, it is critical to have nanosheets with narrow size distribution for their unique size‐dependent physiochemical properties, and nanosheets with a narrow size distribution are the cornerstones for application. Therefore, efficient separation methods of graphene nanosheets have been given considerable attention in many scientific areas recently. Free‐flow electrophoresis is extensively used in the separation and purification of biological molecules with continuous flow separation. The charged graphene oxide nanosheets to some extent are very close in size to biological molecules and share similarity in motion behavior in an electric field. Thus, in the present work, we present a new and simple means to separate graphene oxide nanosheets into more mono‐dispersed size groups by using the free‐flow electrophoresis technique. By optimizing the separation conditions, we were able to obtain graphene oxide sheets with narrow size distribution. The separated samples were characterized by atomic force microscopy, and the size measurements were made by using the software “Image Pro Plus.” In addition, a brief discussion is also given into the theoretic background of the separation of graphene oxide according to the size by the technique of preparative free‐flow electrophoresis.     

Label‐free Electrochemiluminescent Enantioselective Sensor for Distinguishing between Chiral Metallosupramolecular Complexes

Chiral molecular recognition of DNA is important for rational drug design and for developing structural probes of DNA conformation. Developing a convenient and inexpensive assay for sensitive and selective identification of DNA‐specific binding compounds with rapid, easy manipulation is in ever‐increasing demand. Here, we present a “turn‐on” and label‐free electrochemiluminescent (ECL) biosensor for distinguishing chiral metallosupramolecular complexes based on DNA three‐way junction formation selectively induced by the analyte. The fabricated ECL sensor shows excellent performance in the chiral discrimination of two enantiomers with an enantioselective recognition ratio of up to 4.4. More importantly, as a “turn‐on” detection system, the ECL chiral sensor does not suffer from false positives and limited signal range of “signal‐off” systems. Therefore, this concept may provide a new insight into the design of efficient sensors for distinguishing chiral molecules and for investigating the interactions between DNA and small molecules.     

A Chemo‐Mechanical Tweezer for Single‐Molecular Characterization of Soft Materials

A new atomic force microscopy (AFM)‐based chemo‐mechanical tweezer has been developed that can measure mechanical properties of individual macromolecules in supramolecular assembly and reveal positions of azide‐containing polymers. A key feature of the new technology is the use of an AFM tip densely modified with 4‐dibenzocyclooctynols (chemo‐mechanical tweezer) that can react with multiple azide containing macromolecules of micelles to give triazole “clicked” compounds, which during retracting phases of AFM imaging are removed from the macromolecular assembly thereby providing a surface topographical image and positions of azide‐containing polymers. The force–distance curves gave mechanical properties of removal of individual molecules from a supramolecular assembly. The new chemo‐mechanical tweezer will make it possible to characterize molecular details of macromolecular assemblies thereby offering new avenues to tailor properties of such assemblies.     

A “Catch‐and‐Release” Protocol for Alkyne‐Tagged Molecules Based on a Resin‐Bound Cobalt Complex for Peptide Enrichment in Aqueous Media

The development of new and mild protocols for the specific enrichment of biomolecules is of significant interest from the perspective of chemical biology. A cobalt–phosphine complex immobilised on a solid‐phase resin has been found to selectively bind to a propargyl carbamate tag, that is, “catch”, under dilute aqueous conditions (pH 7) at 4 °C. Upon acidic treatment of the resulting resin‐bound alkyne–cobalt complex, the Nicholas reaction was induced to “release” the alkyne‐tagged molecule from the resin as a free amine. Model studies revealed that selective enrichment of the alkyne‐tagged molecule could be achieved with high efficiency at 4 °C. The proof‐of‐concept was applied to an alkyne‐tagged amino acid and dipeptide. Studies using an alkyne‐tagged dipeptide proved that this protocol is compatible with various amino acids bearing a range of functionalities in the side‐chain. In addition, selective enrichment and detection of an amine derived from the “catch and release” of an alkyne‐tagged dipeptide in the presence of various peptides has been accomplished under highly dilute conditions, as determined by mass spectrometry.     

Catalyst‐Dependent Selectivity in the Relay Catalytic Branching Cascade

The synthesis of small organic molecules as probes for discovering new therapeutic agents has been an important aspect of chemical biology. One of the best ways to access collections of small molecules is to use various techniques in diversity‐oriented synthesis (DOS). Recently, a new form of DOS, namely “relay catalytic branching cascades” (RCBCs), has been introduced, wherein a common type of starting material reacts with several scaffold‐building agents (SBAs) to obtain structurally diverse molecular scaffolds under the influence of catalysts. Herein, the RCBC reaction of a common type of substrate with SBAs is reported to give two different types of molecular scaffolds and their formation is essentially dependent on the type of catalyst used.     

Temperature‐Modulated Water Filtration Using Microgel‐Functionalized Hollow‐Fiber Membranes

In the present work, we investigate the potential of aqueous polymer microgels in membrane technology, especially for filtration applications. The poly(N‐vinylcaprolactam)‐based microgels exhibit thermoresponsive behavior and were employed to coat hollow‐fiber membranes used for micro‐ and ultrafiltration. We discuss the preparation of microgel‐modified membranes (by “inside‐out” as well as “outside‐in” filtration in dead‐end mode). The clean‐water permeability and stability of these membranes was studied not only as a function of time, but also of temperature. The microgel‐modified membranes exhibit a reversible thermoresponsive behavior whereby both the resistance and the retention increased with decreasing temperature.     

A Mechanochemically Triggered “Click” Catalyst

“Click” chemistry represents one of the most powerful approaches for linking molecules in chemistry and materials science. Triggering this reaction by mechanical force would enable site‐ and stress‐specific “click” reactions—a hitherto unreported observation. We introduce the design and realization of a homogeneous Cu catalyst able to activate through mechanical force when attached to suitable polymer chains, acting as a lever to transmit the force to the central catalytic system. Activation of the subsequent copper‐catalyzed “click” reaction (CuAAC) is achieved either by ultrasonication or mechanical pressing of a polymeric material, using a fluorogenic dye to detect the activation of the catalyst. Based on an N‐heterocyclic copper(I) carbene with attached polymeric chains of different flexibility, the force is transmitted to the central catalyst, thereby activating a CuAAC in solution and in the solid state.     

Transparent,Ultrahigh‐Gas‐Barrier Films with a Brick–Mortar–Sand Structure

Transparent and flexible gas‐barrier materials have shown broad applications in electronics, food, and pharmaceutical preservation. Herein, we report ultrahigh‐gas‐barrier films with a brick–mortar–sand structure fabricated by layer‐by‐layer (LBL) assembly of XAl‐layered double hydroxide (LDH, X=Mg, Ni, Zn, Co) nanoplatelets and polyacrylic acid (PAA) followed by CO₂ infilling, denoted as (XAl‐LDH/PAA)_n‐CO₂. The near‐perfectly parallel orientation of the LDH “brick” creates a long diffusion length to hinder the transmission of gas molecules in the PAA “mortar”. Most significantly, both the experimental studies and theoretical simulations reveal that the chemically adsorbed CO₂ acts like “sand” to fill the free volume at the organic–inorganic interface, which further depresses the diffusion of permeating gas. The strategy presented here provides a new insight into the perception of barrier mechanism, and the (XAl‐LDH/PAA)_n‐CO₂ film is among the best gas barrier films ever reported.     

Facile Microwave‐Assisted Solid‐Phase Synthesis of Highly Fluorescent Nitrogen–Sulfur‐Codoped Carbon Quantum Dots for Cellular Imaging Applications

Carbon quantum dots (CQDs) have recently attracted significant attention for both their fundamental science and technological applications as a new class of fluorescent zero‐dimensional nanomaterials with a size below 10 nm. However, the reported methods of synthesis were generally less suitable for the large‐scale production of the CQDs with high‐fluorescent quantum yield (QY). In the paper, a novel one‐pot microwave‐assisted drying synthesis approach was presented to prepare CQDs with high QY of 61.3 % for the first time. The production yield of CQDs was 35±3 % in weight. The as‐prepared CQDs were characterized by various techniques such as TEM, AFM, XRD, XPS, FTIR spectroscopy, UV/Vis absorption spectroscopy, and fluorescence spectroscopy. The results showed that the high QY of CQDs was largely attributed to the dual doping of nitrogen and sulphur into CQDs. Such CQDs were then used as live‐cell imaging reagents due to their high QY, good water dispersibility, fine biocompatibility, high photostability, and low cytotoxicity.     

New Aspects of Protein‐film Voltammetry of Redox Enzymes Coupled to Follow‐up Reversible Chemical Reaction in Square‐wave Voltammetry

Protein‐film square‐wave voltammetry of uniformly adsorbed molecules of redox lipophilic enzymes is applied to study their electrochemical properties, when a reversible follow‐up chemical reaction is coupled to the electrochemically generated product of enzyme's electrode reaction. Theoretical consideration of this so‐called “surface ECrev mechanism” under conditions of square‐wave voltammetry has revealed several new aspects, especially by enzymatic electrode reactions featuring fast electron transfer. We show that the rate of chemical removal/resupply of electrochemically generated Red(ads) enzymatic species, shows quite specific features to all current components of calculated square‐wave voltammograms and affects the electrode kinetics. The effects observed are specific for this particular redox mechanism (surface ECrev mechanism), and they got more pronounced at high electrode kinetics of enzymatic reaction. The features of phenomena of “split net‐SWV peak” and “quasireversible maximum”, which are typical for surface redox reactions studied in square‐wave voltammetry, are strongly affected by kinetics and thermodynamics of follow‐up chemical reaction. While we present plenty of relevant voltammetric situations useful for recognizing this particular mechanism in square‐wave voltammetry, we also propose a new approach to get access to kinetics and thermodynamics of follow‐up chemical reaction. Most of the results in this work throw new insight into the features of protein‐film systems that are coupled with chemical reactions.     

Apparent relaxation‐time spectrum cutoff in dilute polymer solutions: An effect of solvent dynamics

The apparent short time cutoff of the relaxation‐time spectrum at surprisingly long times for polymers in solution is a well known but not yet understood observation. To elucidate its origins we revisit viscoelastic and oscillatory flow birefringence data for solutions and melts of two linear polymers (polystyrene and polyisoprene) and present new measurements of oscillatory flow birefringence of the latter. Previous measurements have suggested that the “flexibility” of both polymers in solution is smaller than in the melt on the basis of the breadth of the relaxation‐time spectrum of the solution as compared with that of the melt. Our new measurements have explored a higher effective frequency range than was previously possible. This has allowed us to observe the effect of the rotational relaxation time of the solvent on the dynamics of the solution at high frequencies. To obtain the polymer global motion contribution, one now needs to subtract from the solution properties a frequency‐dependent complex solvating environment contribution. We show that the decrease in apparent “flexibility” for solutions arises from the presence of a solvent that exhibits a rotational relaxation time and thus simple viscoelastic behavior somewhat near the frequency window of the experiment. Although recent predictions of a model for a chain in a solvent with a single relaxation time are in qualitative agreement with our results, our data suggest that the solution results may reflect the influence of solvent on the development of the “entropic spring” forces at short times. © 2001 John Wiley & Sons, Inc. J Polym Sci Part B: Polym Phys 39: 2860–2873, 2001     

GPCR‐CA: A cellular automaton image approach for predicting G‐protein–coupled receptor functional classes

Given an uncharacterized protein sequence, how can we identify whether it is a G‐protein–coupled receptor (GPCR) or not? If it is, which functional family class does it belong to? It is important to address these questions because GPCRs are among the most frequent targets of therapeutic drugs and the information thus obtained is very useful for “comparative and evolutionary pharmacology,” a technique often used for drug development. Here, we present a web‐server predictor called “GPCR‐CA,” where “CA” stands for “Cellular Automaton” (Wolfram, S. Nature 1984, 311, 419), meaning that the CA images have been utilized to reveal the pattern features hidden in piles of long and complicated protein sequences. Meanwhile, the gray‐level co‐occurrence matrix factors extracted from the CA images are used to represent the samples of proteins through their pseudo amino acid composition (Chou, K.C. Proteins 2001, 43, 246). GPCR‐CA is a two‐layer predictor: the first layer prediction engine is for identifying a query protein as GPCR on non‐GPCR; if it is a GPCR protein, the process will be automatically continued with the second‐layer prediction engine to further identify its type among the following six functional classes: (a) rhodopsin‐like, (b) secretin‐like, (c) metabotrophic/glutamate/pheromone; (d) fungal pheromone, (e) cAMP receptor, and (f) frizzled/smoothened family. The overall success rates by the predictor for the first and second layers are over 91% and 83%, respectively, that were obtained through rigorous jackknife cross‐validation tests on a new‐constructed stringent benchmark dataset in which none of proteins has ≥40% pairwise sequence identity to any other in a same subset. GPCR‐CA is freely accessible at http://218.65.61.89:8080/bioinfo/GPCR‐CA , by which one can get the desired two‐layer results for a query protein sequence within about 20 seconds. © 2008 Wiley Periodicals, Inc. J Comput Chem 2009     

Auto‐Tandem Catalysis: A Single Catalyst Activating Mechanistically Distinct Reactions in a Single Reactor

Domino reactions have received great attention as efficient synthetic methodologies for the construction of structurally complex molecules from simple materials in a single operation. Catalysts in domino reactions have also been well studied. In these reactions, a catalyst activates the substrate(s) only once, and the structure of the product is delineated at that time. Recently, the new concept of “tandem catalysis” in domino reactions, in which catalyst(s) sequentially activate more than two mechanistically distinct reactions, has been proposed. Tandem catalysis is categorized into three subclasses: orthogonal‐, auto‐, and assisted‐tandem catalyses. Auto‐tandem catalysis is defined as a process in which one catalyst promotes more than two fundamentally different reactions in a single reactor. An overview of recent and significant achievements in auto‐tandem catalysis is presented in this paper.     

A Glimpse of Our Journey into the Design of Optical Probes in Self‐assembled Surfactant Aggregates

Dynamic self‐assembling amphiphilic surfactant molecules, popularly known as “micelles”, have received widespread attention, due to their ability to modulate the photophysical properties of various organic dyes upon encapsulation. Along with their well‐known use as cleaning agents, catalysts in organic reactions, and even for drug delivery purposes, these surfactant assemblies also show promising pertinence in the recognition of both ionic and nonionic targeted analytes. Low micropolarity and relatively hydrophobic environments promote their interaction with ionic analytes, whereas neutral species mostly affect the aggregation pattern of the probe molecules upon partitioning inside the micellar hydrophobic milieu. The environment‐sensitive nature of micelle‐based self‐assembled probes also prompts us to devise new sensor arrays for the recognition of multiple analytes. While this account will largely focus on our own work in developing surfactant‐triggered self‐assembled sensors, our findings have been placed in the context of the relevant contributions from others during their strategic evolution.     

Novel metal‐ion‐mediated,complex‐imprinted solid‐phase microextraction fiber for the selective recognition of thiabendazole in citrus and soil samples

A novel metal‐ion‐mediated complex‐imprinted‐polymer‐coated solid‐phase microextraction (SPME) fiber used to specifically recognize thiabendazole (TBZ) in citrus and soil samples was developed. The complex‐imprinted polymer was introduced as a novel SPME coating using a “complex template” constructed with Cu(II) ions and TBZ. The recognition and enrichment properties of the coating in water were significantly improved based on the metal ion coordination interaction rather than relying on hydrogen bonding interactions that are commonly applied for the molecularly imprinting technique. Several parameters controlling the extraction performance of the complex‐imprinted‐polymer‐coated fiber were investigated including extraction solvent, pH value, extraction time, metal ion species, etc. Furthermore, SPME coupled with HPLC was developed for detection of TBZ, and the methods resulted in good linearity in the range of 10.0–150.0 ng/mL with a detection limit of 2.4 ng/mL. The proposed method was applied to the analysis of TBZ in spiked soil, orange, and lemon with recoveries of 80.0–86.9% and RSDs of 2.0–8.1%. This research provides an example to prepare a desirable water‐compatible and specifically selective SPME coating to extract target molecules from aqueous samples by introducing metal ions as the mediator.     

Theoretical Contribution towards Understanding Specific Behaviour of “Simple” Protein‐film Reactions in Square‐wave Voltammetry

Surface reactions of uniformly adsorbed redox molecules at working electrode surface are seen as adequate models to studying chemical reactivity of many lipophilic enzymes. When considered under pulse voltammetric techniques, these systems show several uncommon features, whose origin is still not completely clear. The phenomena of “quasireverible maximum”, “splitting” of the net peak in square‐wave voltammetry, and the very steep descent of Faradaic currents of simple surface redox reactions exhibiting fast electron transfer are just some of the features that make these systems quite interesting for further elaborations. In this work, we present a set of theoretical calculations under conditions of square‐wave voltammetry in order try to explain some of aforementioned phenomena. The major goal of our work is to get insight to some voltammetric and chrono‐amperometric features of two considered surface reactions, i. e. (1) the “simple” surface redox reaction, and (2) surface redox reaction coupled to follow‐up irreversible chemical reaction of electrochemically generated redox species (or surface ECirr). We focus on the role of created Red(ads) (here in the reduction pulses only) to the current components of calculated square‐wave voltammograms exhibiting fast electrode reaction. We show that the irreversible chemical removal of electrochemically generated Red(ads) species, created in the potential pulses where half‐reaction of reduction Ox(ads)+ne‐?→Red(ads) is “defined” to take place, causes significant increase of all square‐wave current components. The results presented in this work show how complex the chrono‐amperometric features of surface redox reactions under pulse voltammetric conditions might be. In addition, we point out that both half reactions of a given simple surface redox process can occur, at both, “only reduction” and “only oxidation” potential pulses in square‐wave voltammetry. This, in turn, contributes to the occurrence of many phenomena observed in simple protein‐film voltammetry reactions. The effects of chemical reaction rate to the features of calculated square‐wave voltammograms of surface ECirr systems with fast electrode reaction are reported for the first time in this work.     

Self‐Assembly of Bolaamphiphilic Molecules

The current buzzword in science and technology is self‐assembly and molecular self‐assembly is one of the most prominent fields as far as research in chemical and biological sciences is concerned. Generally, self‐assembly of molecules occurs through weak non‐covalent interactions like hydrogen bonding, π–π stacking, hydrophobic effects, etc. Inspired by many natural systems consisting of self‐assembled structures, scientists have been trying to understand their formation and mimic such processes in the laboratory to create functional “smart” materials, which respond to temperature, light, pH, electromagnetic field, mechanical stress, and/or chemical stimuli. These responses are usually manifested as remarkable changes from the molecular (e. g., conformational state, hierarchical order) to the macroscopic level (e. g., shape, surface properties). Many molecules such as peptides, viruses, and surfactants are known to self‐assemble into different structures. Among them, glycolipids are the new entries in the area of molecules that are being investigated for their self‐assembly characteristics. Among the different classes of glycolipids like rhamnolipids and trehalose lipids, owing to their biological preparations and their structural novelty, sophorolipids (SLs) are evoking greater interest among researchers. Sophorolipids are a class of asymmetric bolas bearing COOH groups at one end and sophorose (dimeric glucose linked by an unusual β(1→2) linkage). The extreme membrane stability of Archaea, attributed to the membrane‐spanning bolas (tetraether glycolipids), has inspired chemists to unravel the molecular designs that underpin the self‐assembly of bolaamphiphilic molecules. Apart from these self‐assembled structures, bolaamphiphiles find applications in many fields such as drug delivery, membrane mimicking, siRNA therapies, etc. The first part of this Personal Account presents some possible self‐assembled structures of bolaamphiphiles and their mechanism of formation. The later part covers our work on one of the typical bolaamphiphiles known as sophorolipids.     

Das Franck‐Condon‐Prinzip

The quantum mechanical model is fully recognized and used for rotational and vibronic transitions in molecules, where according to the model, transitions occur between discrete, the resonance condition matching states, only. It is also accepted that selection rules are implied for rotational and vibronic transitions. Why is it so hard to recognize that this established quantum mechanical model is also valid for vibronic transitions, where the Franck‐Condon principle instead of a selection rule applies to the population of vibronic states in the electronic excitation state? In any case, supposed illustrative and comfortable but wrong explanations, also if they are widely used, must not replace more sophisticated, correct quantum mechanical models. In scientific publications as well as in teaching only the quantum mechanical version of the Franck‐Condon principle should be used. Terms like “Franck‐Condon point” or ”Franck‐Condon region of the photochemical reaction" should be avoided in the future.