A novel (18)O inverse labeling-based workflow for accurate bottom-up mass spectrometry quantification of proteins separated by gel electrophoresis

In the present work we report on a novel and fast protocol for accurate bottom-up protein quantification that overcomes the drawbacks of in-gel digestion and MALDI analysis, while maintaining their benefits. It relies on the following steps: (i) gel electrophoresis separation of proteins, (ii) fast in-gel protein digestion with trypsin, (iii) (18)O-labeling through the decoupled method, (iv) quantification through selected peptides previously chosen using the (18)O inverse labeling approach and that, finally, (v) it takes advantage of software specifically developed to select the peptides that will drive the quantification of the protein in an automated mode. We have accurately quantified the following six proteins: glycogen phosphorylase, BSA, ovalbumin, carbonic anhydrase, trypsin inhibitor, and α-lactalbumin. As a case study we have quantified the protein vitellogenin in plasma of Cyprinus carpio exposed to high levels of estrogens. The proposed new protocol was validated against the traditional ELISA method; both were found to provide comparable results (non-parametric Mann-Whitney U-test).     

Synthesis and reactivity of η-tetramethylcyclopentadienyl-propenyl rhenium complexes: Molecular structure of [(η:η-C5Me4CH2CHCH2)Re(CO)2]

The fulvene complexes [(η⁶-C₅Me₄CH₂)Re(CO)₂(R)] (1a, RI; 1b, RC₆F₅) react at the exocyclic methylene carbon with a vinylmagnesium bromide solution to produce the anionic species [(η⁵-C₅Me₄CH₂CHCH₂)Re(CO)₂(R)]⁻. Protonation with HCl at 0 °C produces the hydride complexes [trans-(η⁵-C₅Me₄CH₂CHCH₂)Re(CO)₂(R)(H)] (2a, RI; 2b, RC₆F₅). Thermolysis of an hexane solution of the iodo-hydride (2a) under a CO atmosphere yields the complex [(η⁵-C₅Me₄CH₂CHCH₂)Re(CO)₃] (3) and [Re(CO)₅I] as by-product. Thermolysis of 2b produced three new products, mainly the chelated complex [(η⁵:η²-C₅Me₄CH₂CHCH₂)Re(CO)₂] (4) and complex 3, with a non-coordinated olefin group, in moderated yield, and traces of [Re(CO)₅(C₆F₅)]. Thermolysis of an hexane solution of 2 in presence of an excess of PMe₃, afforded the phosphine derivative [(η⁵-C₅Me₄CH₂CHCH₂)Re(CO)₂(PMe₃)] (5). All the complexes were characterized by IR, ¹H, ¹³C and ³¹P NMR spectroscopies and mass spectrometry. The molecular structure of 4 has also been determined. The molecule exhibits a formal three-legged piano-stool structure, with two CO groups, and the third position corresponding to the η²-coordination of the propenyl side arm of the η⁵-C₅Me₄ ring.     

Three‐Component Langmuir–Blodgett Films Consisting of Surfactant,Clay Mineral,and Lysozyme: Construction and Characterization

The Langmuir–Blodgett (L–B) technique has been employed for the construction of hybrid films consisting of three components: surfactant, clay, and lysozyme (Lys). The surfactants are octadecylammonium chloride (ODAH) and octadecyl ester of rhodamine B (RhB18). The clays include saponite and laponite. Surface pressure versus area isotherms indicate that lysozyme is adsorbed by the surfactant–clay L–B film at the air–water interface without phase transition. The UV‐visible spectra of the hybrid film ODAH–saponite–Lys show that the amount of immobilized lysozyme in the hybrid film is (1.3±0.2) ng mm^?2. The average surface area (Ω) per molecule of lysozyme is approximately 18.2 nm² in the saponite layer. For the multilayer film (ODAH–saponite–Lys)_n, the average amount of lysozyme per layer is (1.0±0.1) ng mm^?2. The amount of lysozyme found in the hybrid films of ODAH–laponite–Lys is at the detection limit of about 0.4 ng mm^?2. Attenuated total reflectance (ATR) FTIR spectra give evidence for clay layers, ODAH, lysozyme, and water in the hybrid film. The octadecylammonium cations are partially oxidized to the corresponding carbamate. A weak 1620 cm^?1 band of lysozyme in the hybrid films is reminiscent of the presence of lysozyme aggregates. AFM reveals evidence of randomly oriented saponite layers of various sizes and shapes. Individual lysozyme molecules are not resolved, but aggregates of about 20 nm in diameter are clearly seen. Some aggregates are in contact with the clay mineral layers, others are not. These aggregates are aligned in films deposited at a surface pressure of 20 mN m^?1.     

Effect of temperature on the photobehavior of Rose Bengal associated with dipalmitoylphosphatidyl choline liposomes

The association and photobehavior of Rose Bengal (RB) in the presence of dipalmitoylphosphatidyl choline (DPPC) small unilamellar liposomes is determined by the temperature. At temperatures above the main phase transition of the bilayer, the incorporation of the dye is ca. 2.5 times more efficient than that taking place when the bilayer is in the gel state. In both temperature ranges, adsorption isotherms show a noticeable anti-cooperativity that can be related to electrostatic repulsion between bound molecules. The photophysics and the photochemistry of the bound dye molecules also depend on the bilayer status. In particular, in the liquid crystalline state the surrounding of the dye is more polar and production of singlet oxygen is less efficient (Φ∼0.1). This reduced singlet oxygen production is partially due to a low triplet yield (Φ_T=0.35) and triplet self-quenching due to a high local RB concentration. In spite of these, tryptophan is efficiently photobleached when RB is associated to liposomes in the liquid crystalline state, probably due to a Type I mechanism favored by its high local concentration in the sensitized surroundings.     

Propagation of drop coalescence in a two-dimensional emulsion: a route towards phase inversion

The phase inversion that undergoes an emulsion while being sheared is a sudden phenomenon that is still puzzling. In this Letter, we report an experimental investigation on propagative coalescence by using a microfluidic device where a calibrated two-dimensional emulsion is created and destabilized. The velocity of propagation and the probability of the coalescence are reported as a function of the size and the spatial distribution of the drops, respectively. We then discuss the efficiency of this novel scenario of phase inversion and suggest that inversion can be favored by the existence of a drop size distribution.     

Muckenhoupt weights with singularities on closed lower dimensional sets in spaces of homogeneous type

We give sufficient conditions on a real number β and on a closed set F   in a general space of homogeneous type (X,d,μ)$(X,d,\mu )$ in such a way that μ(B(x,d(x,F)))^β$\mu {(B(x,d(x,F)))}^{\beta }$ becomes a Muckenhoupt weight. In order to prove our result, we modify the underlying space so that it becomes 1-Ahlfors regular.     

Adaptive and multi-mining versions of the DM-GRASP hybrid metaheuristic

Metaheuristics represent an important class of techniques to solve, approximately, hard combinatorial optimization problems for which the use of exact methods is impractical. Some researches have been combining machine learning techniques with metaheuristics to adaptively guide and improve the search for near optimal solutions. An example of such development is the DM-GRASP, a hybrid version of the Greedy Randomized Adaptative Search Procedures (GRASP) metaheuristic which incorporates a data mining process. In this hybrid proposal, after executing half of the total number of iterations, the data mining process extracts patterns from an elite set of sub-optimal solutions for the optimization problem. These patterns present characteristics of near optimal solutions and can be used to guide the following half GRASP iterations in the search through the solution space. In this work, we explore new versions of the DM-GRASP metaheuristic to experiment, not a single activation, but multiple and adaptive executions of the data mining process during the metaheuristic execution. We also applied the data mining technique into a reactive GRASP to show that a more sophisticated and not memoryless GRASP approach can also benefit from the use of this technique. In order to evaluate these new proposals, we adopted the server replication for reliable multicast problem since the best known results for this problem were obtained by GRASP and DM-GRASP implementations. The computational experiments, comparing traditional GRASP, DM-GRASP, and the new proposals, showed that multiple and adaptive executions of the data mining process can improve the results obtained by the DM-GRASP hybrid metaheuristic—the new proposals were able to find better results in less computational time for the reliable multicast problem.     

Fluorescence monitoring of microchip capillary electrophoresis separation with monolithically integrated waveguides

Using femtosecond laser writing, optical waveguides were monolithically integrated into a commercial microfluidic lab-on-a-chip device, with the waveguides intersecting a microfluidic channel. Continuous-wave laser excitation through these optical waveguides confines the excitation window to a width of 12 microm, enabling high-resolution monitoring of the passage of different types of fluorescent analytes when migrating and being separated in the microfluidic channel by microchip capillary electrophoresis. Furthermore, we demonstrate on-chip-integrated waveguide excitation and detection of a biologically relevant species, fluorescently labeled DNA molecules, during microchip capillary electrophoresis. Well-controlled plug formation as required for on-chip integrated capillary electrophoresis separation of DNA molecules, and the combination of waveguide excitation and a low limit of detection, will enable monitoring of extremely small quantities with high spatial resolution.     

Ultraviolet Absorption Induces Hydrogen‐Atom Transfer in G⋅C Watson–Crick DNA Base Pairs in Solution

Ultrafast deactivation pathways bestow photostability on nucleobases and hence preserve the structural integrity of DNA following absorption of ultraviolet (UV) radiation. One controversial recovery mechanism proposed to account for this photostability involves electron‐driven proton transfer (EDPT) in Watson–Crick base pairs. The first direct observation is reported of the EDPT process after UV excitation of individual guanine–cytosine (G?C) Watson–Crick base pairs by ultrafast time‐resolved UV/visible and mid‐infrared spectroscopy. The formation of an intermediate biradical species (G[?H]?C[+H]) with a lifetime of 2.9 ps was tracked. The majority of these biradicals return to the original G?C Watson–Crick pairs, but up to 10 % of the initially excited molecules instead form a stable photoproduct G*?C* that has undergone double hydrogen‐atom transfer. The observation of these sequential EDPT mechanisms across intermolecular hydrogen bonds confirms an important and long debated pathway for the deactivation of photoexcited base pairs, with possible implications for the UV photochemistry of DNA.