Capillary sodium dodecyl sulfate-DALT electrophoresis with laser-induced fluorescence detection for size-based analysis of proteins in human colon cancer cells

Capillary sodium dodecyl sulfate (SDS)-DALT electrophoresis (SDS-DALT-CE) refers to CE separation of proteins based on their size; DALT is the abbreviation for Dalton, the unit used to describe molecular weight. In this work, seven proteins from 18 to 116 kDa were denatured by SDS, labeled by 3-(2-furoyl) quinoline-2-carboxaldehyde, separated by SDS-DALT-CE in polyethylene oxide sieving matrix, and detected by laser-induced fluorescence (LIF) in a sheath flow cuvette. This method was combined with detergent differential fractionation, which is a protein fractionation method using a series of detergent-containing buffers to sequentially extract protein fractions from cells, to analyze the proteins in HT29 human colon adenocarcinoma cells. In addition, on-column labeling was demonstrated for protein analysis by SDS-DALT-CE with LIF, and applied to analysis of proteins in a single HT29 cancer cell. Most proteins had molecular masses from 10 to 120 kDa. Similar protein profiles were obtained for single cells and protein extract of a large cell population.     

Enzymes in Organic Synthesis: Application to the Problems of Carbohydrate Recognition (Part 1)

Carbohydrates on cell surfaces are information molecules. Although only seven or eight monosaccharides are commonly used as building blocks in mammalian systems, the multifunctionality of these monomers can lead to the assembly of an immense variety of complex structures. Millions of different tetrasaccharide structures, for example, can be constructed from this small number of building blocks, if branching, the stereochemistry of glycosidic linkages, and the modification of hydroxyl and amino groups are taken into consideration. Oligosaccharides therefore represent an effective class of biomolecules that code for a vast amount of information required in various biological recognition processes, such as intercellular communication, signal transduction, cell adhesion, infection, cell differentiation, development and metastasis. The pace of development of pharmaceuticals based on carbohydrates has, however, been slower than that based on other classes of biomolecules. Part of the reason is the lack of technologies for the study of complex carbohydrates. There is no method to amplify oligosaccharides for sequence analysis. There is no machine available for automated synthesis of oligosaccharides. In addition, the possibly poor bioavailability and difficulties in the large-scale synthesis of carbohydrates have undoubtedly contributed to this slow pace. The enzymatic and chemoenzymatic methods, especially those based on aldolases and glycosyltransferases, described here appear to be useful for the synthesis of mono- and oligosaccaharides and related molecules. Further advances in glycobiology will probably lead to the development of new technologies for the study of carbohydrate recognition and for the synthesis of bioactive carbohydrates and mimetics to control the recognition processes.     

Enantioselective total syntheses of manzamine a and related alkaloids

As a prelude to undertaking the total syntheses of the complex manzamine alkaloids, a series of model studies were conducted to establish the scope and limitations of intramolecular [4 + 2] cycloadditions of N-acylated vinylogous ureas with the trienic substrates 17a,b, 28a,b, and 34. These experiments clearly demonstrated that the geometry of the internal double bond and the presence of an electron-withdrawing group on the diene moiety were essential for the facile and stereoselective formation of the desired cycloadducts. The enantioselective syntheses of the manzamine alkaloids ircinol A (75), ircinal A (5), and manzamine A (1) were then completed by employing a convergent strategy that featured a novel domino Stille/Diels-Alder reaction to construct the tricyclic ABC ring core embodied in these alkaloids. Thus, the readily accessible chiral dihydropyrrole 58 was first converted in a single chemical operation into the key tricyclic intermediate 60. Two ring-closing metathesis reactions were then used to form the 13- and 8-membered rings leading to Z-72 and 74, the latter of which was quickly elaborated into ircinal A (5) via ircinol A (75). The synthetic 5 thus obtained was converted into manzamine A (1) following literature precedent. This concise synthesis of ircinal A required a total of 24 operations from commercially available starting materials with the longest linear sequence being 21 steps.     

Structures and stabilities of [C3H2]+ ˙ and [C3H2]2+ ions

Ab initio molecular orbital theory using basis sets up to 6-311G^{* *}, with electron correlation incorporated via configuration interaction calculations with single and double substitutions, has been used to study the structures and energies of the C₃H₂ monocation and dication. In agreement with recent experimental observations, we find evidence for stable cyclic and linear isomers of [C₃H₂]^{+ ˙}. The cyclic structure (, a) represents the global minimum on the [C₃H₂]^{+ ˙} potential energy surface. The linear isomer (, b) lies somewhat higher in energy, 53 kJ mol^?1 above a. The calculated heat of formation for [HCCCH]^{+ ˙} (1369 kJ mol^?1) is in good agreement with a recent experimental value (1377 kJ mol^?1). For the [C₃H₂]²⁺ dication, the lowest energy isomer corresponds to the linear [HCCCH]²⁺ singlet (h). Other singlet and triplet isomers are found not to be competitive in energy. The [HCCCH]²⁺ dication (h) is calculated to be thermodynamically stable with respect to deprotonation and with respect to C? C cleavage into CCH⁺ + CH⁺. The predicted stability is consistent with the frequent observation of [C₃H₂]²⁺ in mass spectrometric experiments. Comparison of our calculated ionization energies for the process [C₃H₂]^{+ ˙} → [C₃H₂]²⁺ with the Q_min values derived from charge-stripping experiments suggests that the ionization is accompanied by a significant change in structure.     

Electrochemically switchable hydrogen-bonded molecular shuttles

A series of [2]rotaxanes containing succinamide and naphthalimide hydrogen-bonding stations for a benzylic amide macrocycle is described. Electrochemical reduction and oxidation of the naphthalimide group alters its ability to form hydrogen bonds to the macrocycle to such a degree that redox processes can be used to switch the relative macrocycle-binding affinities of the two stations in a rotaxane by over 8 orders of magnitude. The structure of the neutral [2]rotaxane in solution is established by (1)H NMR spectroscopy and shows that the macrocycle exhibits remarkable positional integrity for the succinamide station in a variety of solvents. Cyclic voltammetry experiments allow the simultaneous stimulation and observation of a redox-induced dynamic process in the rotaxane which is both reversible and cyclable. Model compounds in which various conformational and co-conformational changes are prohibited demonstrate unequivocally that the redox response is the result of shuttling of the macrocycle between the two stations. At room temperature in tetrahydrofuran the electrochemically induced movement of the macrocycle between the two stations takes approximately 50 micros.     

Evaluation of the use of consensus values in proficiency testing programmes

Proficiency testing (PT) is an essential tool used by laboratory accreditation bodies to assess the competency of laboratories. Because of limited resources of PT providers or for other reasons, the assigned reference value used in the calculation of z-score values has usually been derived from some sort of consensus value obtained by central tendency estimators such as the arithmetic mean or robust mean. However, if the assigned reference value deviates significantly from the ‘true value’ of the analyte in the test material, laboratories’ performance will be evaluated incorrectly. This paper evaluates the use of consensus values in proficiency testing programmes using the Monte Carlo simulation technique. The results indicated that the deviation of the assigned value from the true value could be as large as 40%, depending on the parameters of the proficiency testing programmes under investigation such as sample homogeneity, number of participant laboratories, concentration level, method precision and laboratory bias. To study how these parameters affect the degree of discrepancy between the consensus value and the true value, a fractional factorial design was also applied. The findings indicate that the number of participating laboratories and the distribution of laboratory bias were the prime two factors affecting the deviation of the consensus value from the true value.     

Manganese/Bicarbonate-catalyzed epoxidation of lipophilic alkenes with hydrogen peroxide in ionic liquids

[reaction: see text] Effective epoxidation of lipophilic alkenes using hydrogen peroxide was accomplished with the manganese sulfate/bicarbonate catalytic system in an ionic liquid at room temperature.     

Langmuir — Blodgett deposition of lipid films on hydrogel as a basis for biosensor development

Lipid membranes composed of phosphatidyl choline and cholesterol were interfaced to polyacrylamine hydrogen by Langmuir—Blodgett thin-film deposition. The extent of lipid adsorption to the gel surface was critically dependent on the hydration of the polymer as determined by contact angle measurements. Some electrochemical transducers incorporating the deposited membrane/gel structure responded positively to phloretin and valinomycin. Limitations to the construction of this device are discussed.     

A strategy for the solution-phase parallel synthesis of N-(pyrrolidinylmethyl)hydroxamic acids

Both five- and six-membered iminocyclitols have proven to be useful transition-state analogue inhibitors of glycosidases. They also mimic the transition-state sugar moiety of the nucleoside phosphate sugar in glycosyltransferase-catalyzed reactions. Described here is the development of a general strategy toward the parallel synthesis of a five-membered iminocyclitol linked to a hydroxamic acid group designed to mimic the transition state of GDP-fucose complexed with Mn(II) in fucosyltransferase reactions. The iminocyclitol 8 containing a protected hydroxylamine unit was prepared from D-mannitol. The hydroxamic acid moiety was introduced via the reaction of 8 with various acid chlorides. The strategy is generally applicable to the construction of libraries for identification of glycosyltransferase inhibitors.     

Carbohydrate-Based Antibiotics: A New Approach to Tackling the Problem of Resistance

Recent interest in the problem of antibiotic resistance has led to the identification of new targets and strategies for antibiotic discovery. Among these efforts, the development of small molecules as antibiotics to target carbohydrate receptors or carbohydrate-modifying enzymes represents a new direction. This review covers recent work in this regard and discusses the impact of each strategy on the development of drug resistance. Particularly interesting targets include unique cell-surface carbohydrates, the transglycosylase involved in peptidoglycan biosynthesis, and bacterial RNA. With a greater understanding of the genome of different bacteria as well as advances in functional genomics and proteomics, we can expect the discovery of a variety of targets for the development of novel antibiotics.