Mapping of Malus domestica allergens by 2-D electrophoresis and IgE-reactivity

The importance of apple allergens has been repeatedly emphasized, and their presence has been confirmed both in pollen and in fruits. In the present study, a combination of proteomic tools have been used to build a complete allergen map of apple. The water-soluble fraction of an apple extract was precipitated using a phenol-based procedure and separated by 2-DE. Initially four previously classified allergens, Mal d 1, Mal d 2, Mal d 3 and Mal d 4, could be identified in Western blots with polyclonal rabbit antibodies directed to the four respective allergens, and subsequently matched to the bands recognized by several patient sera. Further, all four known apple allergens were localized on a 2-DE map and they were matched with spots recognized by sera of patients with different allergic patterns. Moreover, a new, putative allergen could be identified using MS. We evaluated the influence of post-translational modifications and the immunoreactivity under different analytical conditions. The comparison of different visualization methods for 2-DE gels and blots revealed that even very low concentrations of the intact epitopes are detectable by IgEs of patients, and therefore might be sufficient to trigger allergic symptoms in sensitized individuals.     

The determination of protein phosphorylation on electrophoresis gel blots by laser ablation inductively coupled plasma-mass spectrometry

Laser ablation interfaced with inductively coupled plasma-mass spectrometry is described as a new method to determine the presence of phosphorylated proteins on electrophoresis gel blots. The method was applied to the phosphoprotein beta-casein with good detection levels being observed at 16 pmole. Attempts at using the technique to detect beta-casein on electrophoresis gels are also described.     

A combined quantum and molecular mechanical study of the O2 reductive cleavage in the catalytic cycle of multicopper oxidases

The four-electron reduction of dioxygen to water in multicopper oxidases takes place in a trinuclear copper cluster, which is linked to a mononuclear blue copper site, where the substrates are oxidized. Recently, several intermediates in the catalytic cycle have been spectroscopically characterized, and two possible structural models have been suggested for both the peroxy and native intermediates. In this study, these spectroscopic results are complemented by hybrid quantum and molecular mechanical (QM/MM) calculations, taking advantage of recently available crystal structures with a full complement of copper ions. Thereby, we obtain optimized molecular structures for all of the experimentally studied intermediates involved in the reductive cleavage of the O(2) molecule and energy profiles for individual reaction steps. This allows identification of the experimentally observed intermediates and further insight into the reaction mechanism that is probably relevant for the whole class of multicopper oxidases. We suggest that the peroxy intermediate contains an O(2)(2-) ion, in which one oxygen atom bridges the type 2 copper ion and one of the type 3 copper ions, whereas the other one coordinates to the other type 3 copper ion. One-electron reduction of this intermediate triggers the cleavage of the O-O bond, which involves the uptake of a proton. The product of this cleavage is the observed native intermediate, which we suggest to contain a O(2-) ion coordinated to all three of the copper ions in the center of the cluster.     

A method for recovery of native, clonally-restricted immunoglobulins from agarose gels

Multiple low level, clonally-restricted, immunoglobulins (Ig) are commonly encountered on routine serum protein electrophoresis by clinical laboratories using high resolution zone electrophoresis on agarose. We sought a method for recovering the clonally-restricted Ig, in native configuration, from clinical laboratory gels as a first step in the investigation of its clinical significance. We found that a two-stage electrophoretic procedure gave consistently good recoveries. After routine agarose gel electrophoresis, portions of the electropherogram, containing clonally-restricted Ig, were excised and subjected to flatbed isoelectric focusing in agarose to enhance separation of the individual antibody clonotypes. Multiple slabs, containing the same clonally-restricted Ig, could be cut from adjacent tracks (i.e., tracks loaded with the same specimen) on the zone electropherogram and applied to a single track on the focusing gel to improve separation and increase yields. The focused gels were cut to isolate slabs containing individual clonotypes. These slabs were washed to remove carrier ampholytes and held at -20 degrees C overnight. Ig was extracted from the thawed gels, with 61-68% recovery, by ultracentrifugation following physical disruption of the gel. Antigen binding activity of the recovered Ig was verified by rate nephelometry. Clonally-restricted antibodies were successfully isolated from an immune animal serum by this procedure and biotinylated for use as probes on Western blots.     

自组装分子凝胶的原位光聚合及其聚合物研究

合成了一种以二胺为基础的可聚合凝胶因子4,4’-二（α-甲基丙烯酰氧基- 1,3-亚乙氧基羰基丙酰氨基）二苯甲烷（BMDM）,利用在特定结构区域的非共价 键相互作用自组装形成有序的三维纤维网络,使有机溶剂凝胶化。并利用紫外光引 发聚合,“锁定”凝胶网络,形成稳定的有序高级结构。光聚合后,分子凝胶的稳 定时间超过1年;而光聚合前,分子凝胶的稳定时间一般只有几天到几十天。由电 镜和偏光显微镜研究的凝胶形态学表明,凝胶中存在由相互缠结的三维纤维网络构 成的球晶。DSC研究表明,未聚合的分子凝胶中球晶结构的解缔（peak 1）须克服 一个势垒,势能为ΔH = 0.8 kJ·mol~(-1),这主要是一种范德华弱相互作用。而 发生的凝胶-溶胶相转变（peak 2）,则说明了自组装纤维中BMDM分子间存在氢键 等次价键相互作用。这种次价键能即为凝胶-溶胶相转变热焓ΔH = 22.3 kJ· mol~(-1)。聚合凝胶只有体积相变而无凝胶-溶胶相转变,且聚合凝胶的体积相变 温度要比光聚合前的凝胶-溶胶相转变温度高出约为110 ～ 120 ℃。研究干聚合凝 胶在丙酮中的溶胀特性发现,其溶胀过程遵循二级溶胀动力学,影响该凝胶溶胀行 为的因素主要是交联程度。     

Fluorescent imaging and analysis with Typhoon 8600

Current technologies in laser-based imaging systems for life science applications offer highly sensitive and quantitative detection of multiple labels. Typhoon 8600 variable mode imager is capable of fluorescence, storage phosphor, and chemiluminescence detection of gels and blots. The system delivers sensitive fluorescent detection of nucleic acids and proteins in both agarose and polyacrylamide gel formats. Detection and discrimination of multicolor fluorescent signals in fragment analysis, electromobility shift assays, Western blotting and other applications enhance the speed and accuracy of analysis.     

Procedures and computer program for deriving the Ferguson plot from electrophoresis in a single pore gradient gel: application to agarose gel and a polystyrene particle.

This study presents a computerized evaluation of pore gradient gel electrophoretograms to arrive at estimates for both the particle-free mobility and retardation coefficient, which is related to particle size. Agarose pore gradient gels ranging from 0.2 to 1.1% agarose were formed. Gel gradients were stabilized during their formation by a density gradient of 0-20% 5-(N-2,3-dihydroxypropylacetamido)- 2,4,6-triiodo-N,N'bis-(2,3-dihydroxypropyl)-isophthalamide (Nycodenz). Densitometry of gelled-in Bromophenol Blue showed that these pore gradients exhibited a linear central segment and were reproducible. Migration distances of polystyrene sulfate microspheres (36.5 nm radius) in agarose pore gradient gel electrophoresis were determined by time-lapse photography at several durations of electrophoresis. These migration distances were evaluated as a function of migration time as previously reported (D. Tietz, Adv. Electrophoresis 1988, 2, 109-169). Although this is not necessarily required, the mathematical approach used in this study assumed linearity of both the pore gradient and the Ferguson plot for reasons of simplicity. The data evaluation on the basis of the extended Ogston model is incorporated in a user-friendly program, GRADFIT, which is designed for personal computers (Macintosh). The results obtained are compared with (1) conventional electrophoresis using several gels of single concentration with and without Nycodenz, and (ii) a different mathematical approach for the analysis of gradient gels (Rodbard et al., Anal. Biochem. 1971, 40, 135-157). Moreover, a simple procedure for evaluating linear pore gradient gels using linear regression analysis is presented. It is concluded that the values of particle-free mobility and retardation coefficient derived from pore gradient gel electrophoresis using the different mathematical methods are statistically indistinguishable from each other. However, these values are different, albeit close, to those obtained from conventional Ferguson plots. One of the possible reasons for this relatively minor discrepancy is that the particle-free mobility changed slightly during electrophoresis, which has a different effect on electrophoresis in homogeneous gels (single time measurement) and pore gradient gels (multiple time measurements). The characterization of particles according to size and charge by pore gradient electrophoresis provides a significant operational simplification and sample economy compared to that requiring the use of several gel concentrations, although at the price of increased requirements of instrumentation.     

Rheology of food,cosmetics and pharmaceuticals

The major recent advances in the rheology of food, cosmetics and pharmaceuticals have been developed in the fields of emulsions and gels. Concerning emulsion rheology, this review has been specially focused on the problem of wall slip, processing and modelling of its non-linear viscoelasticity behaviour. Concerning the rheology of gels, the most relevant contributions have been made on the improvement of gel strength by acidification of several protein dispersions.     

Ebselen and congeners inhibit NADPH oxidase 2-dependent superoxide generation by interrupting the binding of regulatory subunits

NADPH oxidases (Nox) are a primary source of reactive oxygen species (ROS), which function in normal physiology and, when overproduced, in pathophysiology. Recent studies using mice deficient in Nox2 identify this isoform as a novel target against Nox2-implicated inflammatory diseases. Nox2 activation depends on the binding of the proline-rich domain of its heterodimeric partner p22phox to p47phox. A high-throughput screen that monitored this interaction via fluorescence polarization identified ebselen and several of its analogs as inhibitors. Medicinal chemistry was performed to explore structure-activity relationships and to optimize potency. Ebselen and analogs potently inhibited Nox1 and Nox2 activity but were less effective against other isoforms. Ebselen also blocked translocation of p47phox to neutrophil membranes. Thus, ebselen and its analogs represent a class of compounds that inhibit ROS generation by interrupting the assembly of Nox2-activating regulatory subunits.     

In‐gel equilibration for improved protein retention in 2DE‐based proteomic workflows

The 2DE is a powerful proteomic technique, with excellent protein separation capabilities where intact proteins are spatially separated by pI and molecular weight. 2DE is commonly used in conjunction with MS to identify proteins of interest. Current 2DE workflow requires several manual processing steps that can lead to experimental variability and sample loss. One such step is the transition between first dimension IEF and second‐dimension SDS‐PAGE, which requires exchanging denaturants and the reduction and alkylation of proteins. This in‐solution‐based equilibration step has been shown to be rather inefficient, losing up to 30% of the original starting material through diffusion effects. We have developed a refinement of this equilibration step using agarose stacking gels poured on top of the second‐dimension SDS‐PAGE gel, referred to as in‐gel equilibration. We show that in‐gel equilibration is effective at reduction and alkylation in SDS‐PAGE gels. Quantification of whole‐cell extracts separated on 2DE gels shows that in‐gel equilibration increases protein retention, decreased intergel variability, and simplifies 2DE workflow.     

Formation of Fe2+-phenanthroline complexes in the volume of hydrogel

The interaction of weakly crosslinked gels of poly(methacrylic acid) and a nonionic gel based on N-vinylcaprolactam and N-vinylimidazole with Fe²⁺ ions in aqueous solutions has been studied. A comparative study of the conformational state and of the absorption ability of the gels for their interaction with iron and ferroin ions has been performed. It has been shown that Fe²⁺ ions are efficiently absorbed by both poly(methacrylic acid) gels and the gels based on N-vinylcaprolactam and N-vinylimidazole. In this case, the poly(methacrylic acid) gels undergo contraction, while nonionic gels derived from N-vinylcaprolactam and N-vinylimidazole experience swelling. During the interaction of gels containing immobilized Fe²⁺ ions with phenanthroline, the efficient absorption of the complexon and the formation of Fe²⁺-phenanthroline complexes in the gel volume take place, thus inducing the contraction of gels. The interaction of poly(methacrylic acid) gels with ferroin is accompanied by the absorption of the complex, the formation of the tertiary complexes, and the collapse of the gel. The efficiency of formation of tertiary complexes in the gel volume is independent of their preparation procedure.     

A simple protocol for protein extraction of recalcitrant fruit tissues suitable for 2-DE and MS analysis

Fruit tissues are considered recalcitrant plant tissue for proteomic analysis. Three phenol-free protein extraction procedures for 2-DE were compared and evaluated on apple fruit proteins. Incorporation of hot SDS buffer, extraction with TCA/acetone precipitation was found to be the most effective protocol. The results from SDS-PAGE and 2-DE analysis showed high quality proteins. More than 500 apple polypeptides were separated on a small scale 2-DE gel. The successful protocol was further tested on banana fruit, in which 504 and 386 proteins were detected in peel and flesh tissues, respectively. To demonstrate the quality of the extracted proteins, several protein spots from apple and banana peels were cut from 2-DE gels, analyzed by MS and have been tentatively identified. The protocol described in this study is a simple procedure which could be routinely used in proteomic studies of many types of recalcitrant fruit tissues.     

Self‐recovery and fatigue of double‐network gels with permanent and reversible bonds

Double‐network (DN) gels subjected to cyclic deformation (stretching up to a fixed strain followed by retraction down to the zero stress) demonstrate a monotonic decrease in strain with time (self‐recovery). Observations show that the duration of total recovery varies in a wide interval (from a few minutes to several days depending on composition of the gel), and this time is strongly affected by deformation history. A model is developed for the kinetics of self‐recovery. Its ability to describe stress–strain diagrams in cyclic tests with various periods of recovery is confirmed by comparison with observations on several DN gels. Numerical simulation reveals pronounced enhancement of fatigue resistance in multi‐cycle tests with stress‐ and strain‐controlled programs when subsequent cycles of deformation are interrupted by intervals of recovery. © 2019 Wiley Periodicals, Inc. J. Polym. Sci., Part B: Polym. Phys. 2019 , 57, 438–453     

n-Alkyl ammonium 2-acrylamido-2-methylpropanesulfonates: Synthesis, properties, and polymerization

Polymerizable surfactant organic salts based on n-alkylamines and 2-acrylamido-2-methylpropanesulfonic acid—n-dodecyl ammonium 2-acrylamido-2-methylpropane sulfonate and n-cetyl ammonium 2-acrylamido-2-methylpropane sulfonate—are synthesized, characterized, and studied for the first time. Their critical micelle concentrations in water are estimated by the methods of conductometry and viscometry. The appearance of micelles in water is confirmed by atomic-force microscopy. As evidenced by some features, cetyl ammonium 2-acrylamido-2-methylpropanesulfonate forms reverse micelles in xylene. The polymerization of n-alkyl ammonium 2-acrylamido-2-methylpropane sulfonates that gives rise to stoichiometric polyelectrolyte-colloid complexes is performed in systems based on solvents of various polarities: from low-polarity xylene and dioxane to water. In low- and high-polarity systems, the features of polymerization are typical for micellar polymerization. (It is completed within several minutes.) In dioxane-water mixtures having intermediate polarities, the rate of polymerization is much lower. The polymerization of the monomers in xylene affords stable organic gels. The resulting polymers are water-insoluble, but are soluble in several alcohols and chloroform. Films cast from chloroform solutions demonstrate a well-defined layer structure.     

Light Scattering Probes of Viscoelastic Fluids and Solids

In this article, we discuss recent advances in static and dynamic light scattering applied to soft materials. Special emphasis is given to light scattering methods that allow access to turbid and solid‐like systems, such as colloidal suspensions, emulsions, glasses, or gels. Based on a combination of single‐ and multispeckle detection schemes, it is now possible to cover an extended range of relaxation times from a few nanoseconds to minutes or hours and length scales below 1 nm up to several microns. The corresponding elastic properties of viscoelastic fluids or solid materials range roughly from below 1 Pa to several 100 kPa. Different applications are discussed such as light scattering from suspensions of highly charged colloidal particles, colloid and protein gels, as well as dense surfactant solutions.     

纳米复合水凝胶的力学行为与刺激响应性

纳米复合水凝胶（nanocomposite hydrogels,NC凝胶）由于其简便的制备方法、独特的组成、优异的力学性能、高光学透明度以及良好的溶胀/去溶胀性等,引起了广泛的关注.近年来,本课题组在NC凝胶的力学行为及刺激响应性NC凝胶的制备方面取得了可喜的研究成果.观察到新合成的和溶胀平衡的聚N-异丙基丙烯酰胺（PNIPAm）-锂藻土LaponiteNC凝胶的超拉伸性,发现了在大应变下的应变硬化现象;发现利用Mooney-Rivlin方程可以描述NC凝胶的压缩应力-应变,但不能描述较大的应变硬化;Creton模型能很好地描述NC凝胶在大形变下的应力-应变曲线,特别是凝胶的应变硬化;从NC凝胶小应变下的平衡剪切模量得到了有效交联密度,观察到NC凝胶形变-回复过程的迟滞现象,测定了NC凝胶的松弛指数.我们认为NC凝胶具有超拉伸性的原因是其较低的交联密度和适度的松弛速率;在响应性NC凝胶的制备方面,发现了溶胶型Laponite的水分散液的稳定窗口,避免了加入离子性单体引起的聚集沉淀;通过共聚制备了具有超拉伸性、pH响应或温度和pH双响应的透明NC凝胶.本文主要综述了我们课题组在NC凝胶力学行为及响应性NC凝胶领域的一些研究进展,并分析了NC凝胶研究领域仍然未解决的科学问题,以及今后可能的发展方向.     

Study on the NaNp/Al2O3-SiO2 system

Sodium naphthenide (NaNp) deposited on aluminosilicate gels yields systems that exhibit signals in EPR spectra, the multiplicity, g values, and intensities of which depend on the gel composition. The symmetrical singlets (I) of a g(1) value of 2.00 were assigned to the complexed naphthalene anion radicals on the centers occurring on the surfaces of the alumina and silica phases of the gels studied. Those radicals complexed on surface Lewis acid sites are of hard acid/hard base type according to Pearson theory, and are bonded to the sites by ionic forces. The asymmetrical singlets (II) described by the value g(2)=1.95 were assigned to naphthalene anion radicals, which are complexed by the centers of the aluminosilicate phase of the gels studied. Those radicals, complexed on surface Lewis acid sites of this phase, are of soft acid/soft base type and are bonded to the sites by covalent bonds. The highest intensity of the singlet (I) was recorded for the system containing alumina gel. The highest intensity of the singlet (II) was recorded for the system containing Al(2)O(3) in 30 wt%. The structures of Lewis acid sites on aluminosilicate phases are postulated to be different from those on alumina or silica phases.     

The Structure of a Plant Tyrosinase from Walnut Leaves Reveals the Importance of “Substrate‐Guiding Residues” for Enzymatic Specificity

Tyrosinases and catechol oxidases are members of the class of type III copper enzymes. While tyrosinases accept both mono‐ and o‐diphenols as substrates, only the latter substrate is converted by catechol oxidases. Researchers have been working for decades to elucidate the monophenolase/diphenolase specificity on a structural level and have introduced an early hypothesis that states that the reason for the lack of monophenolase activity in catechol oxidases may be its structurally restricted active site. However, recent structural and biochemical studies of this enzyme class have raised doubts about this theory. Herein, the first crystal structure of a plant tyrosinase (from Juglans regia) is presented. The structure reveals that the distinction between mono‐ and diphenolase activity does not depend on the degree of restriction of the active site, and thus a more important role for amino acid residues located at the entrance to and in the second shell of the active site is proposed.     

Porphyrins incorporated to SiO<Subscript>2</Subscript> gels as fluorescent materials and efficient catalysts in biomimetic photocatalytic systems

Two types of porphyrins (water-soluble and water-insoluble) were encapsulated in transparent monolithic silica gels. Their properties in solutions and at various steps of the sol–gel process were studied by absorption and emission electron spectroscopy. A photocatalytic system containing porphyrins immobilized in powdered silica gel for α-pinene biomimetic oxidation to pinocarveol, pinocarvone and myrtenol is reported. The impact of several parameters (visible light irradiation time, organic solvent, the presence of an electron acceptor/donor, and substrate concentration) on this biotransformation process was investigated and optimized. It was established that photochemical excitation of sol–gel immobilized metal-free porphyrins is crucial for catalyzed oxidation of monoterpenes.