An analytical workflow for the molecular dissection of irreversibly modified fluorescent proteins

Owing to their ability to be genetically expressed in live cells, fluorescent proteins have become indispensable markers in cellular and biochemical studies. These proteins can undergo a number of covalent chemical modifications that may affect their photophysical properties. Among other mechanisms, such covalent modifications may be induced by reactive oxygen species (ROS), as generated along a variety of biological pathways or through the action of ionizing radiations. In a previous report [1], we showed that the exposure of cyan fluorescent protein (ECFP) to amounts of ^?OH that mimic the conditions of intracellular oxidative bursts (associated with intense ROS production) leads to observable changes in its photophysical properties in the absence of any direct oxidation of the ECFP chromophore. In the present work, we analyzed the associated structural modifications of the protein in depth. Following the quantified production of ^?OH, we devised a complete analytical workflow based on chromatography and mass spectrometry that allowed us to fully characterize the oxidation events. While methionine, tyrosine, and phenylalanine were the only amino acids that were found to be oxidized, semi-quantitative assessment of their oxidation levels showed that the protein is preferentially oxidized at eight residue positions. To account for the preferred oxidation of a few, poorly accessible methionine residues, we propose a multi-step reaction pathway supported by data from pulsed radiolysis experiments. The described experimental workflow is widely generalizable to other fluorescent proteins, and opens the door to the identification of crucial covalent modifications that affect their photophysics.

Crude glycerol combustion: Particulate,acrolein, and other volatile organic emissions

Crude glycerol is an abundant by-product of biodiesel production. As volumes of this potential waste grow, there is increasing interest in developing new value added uses. One possible use, as a boiler fuel for process heating, offers added advantages of energy integration and fossil fuel substitution. However, challenges to the use of crude glycerol as a boiler fuel include its low energy density, high viscosity, and high autoignition temperature. We have previously shown that a refractory-lined, high swirl burner can overcome challenges related to flame ignition and stability. However, critical issues related to ash behavior and the possible formation of acrolein remained. The work presented here indicates that the presence of dissolved catalysts used during the esterification and transesterification processes results in extremely large amounts of inorganic species in the crude glycerol. For the fuels examined here, the result is a submicron fly ash comprised primarily of sodium carbonates, phosphates, and sulfates. These particles report to a well-developed accumulation mode (0.3–0.7 μm diameter), indicating extensive ash vaporization and particle formation via nucleation, condensation, and coagulation. Particle mass emissions were between 2 and 4 g/m³. These results indicate that glycerol containing soluble catalyst is not suitable as a boiler fuel. Fortunately, process improvements are currently addressing this issue. Additionally, acrolein is of concern due to its toxicity, and is known to be formed from the low temperature thermal decomposition of glycerol. Currently, there is no known reliable method for measuring acrolein in sources. Acrolein and emissions of other volatile organic compounds were characterized through the use of a SUMMA canister-based sampling method followed by GC–MS analysis designed for ambient measurements. Results indicate crude glycerol combustion produces relatively small amounts of acrolein (～15 ppbv) and other volatile organic compounds, with emissions comparable to those from natural gas combustion.     

Lock‐In Thermography to Analyze Plasmonic Nanoparticle Dispersions

The physicochemical properties of nanoparticles (NPs) strongly rely on their colloidal stability, and any given dispersion can display remarkably different features, depending on whether it contains single particles or clusters. Thus, developing efficient experimental methods that are able to provide accurate and reproducible measures of the NP properties is a considerable challenge for both research and industrial development. By analyzing different NPs, through size and concentration, it is demonstrated that lock‐in thermography, based on light absorption and heat generation, is able to detect and differentiate the distinct aggregation and re‐dispersion behavior of plasmonic NPs, e.g., gold and silver. Most importantly, the approach is nonintrusive and potentially highly cost‐effective compared to standard analytical techniques.     

Plant viral capsids as nanobuilding blocks: construction of arrays on solid supports

The virions of Cowpea mosaic virus (CPMV) can be regarded as programmable nanobuilding blocks with a diameter of approximately 28 nm. The particles display a number of features that can be exploited for nanoscale material fabrication. In this study we use the virus-derived building blocks for construction of arrays on solid supports. Biotin-modified CPMV particles are used with Streptavidin as a linker molecule in order to enable self-assembly of arrays from the surface up by a layer-by-layer approach. CPMV particles with different fluorescent labels, which enable differential detection of each layer, have been immobilized on surfaces and arranged in defined layers. This approach provides novel structured arrays which have the potential for development as functional devices at the nanoscale.     

Photochemical cleavage and release of carboxylic acids from alpha-keto amides

Carboxylate groups incorporated at the position alpha to the keto carbonyl of alpha-keto amides 1 were photochemically cleaved in aqueous media to give carboxylic acids in 70-90% yields with quantum yields of 0.3. The cleavage coproducts were diastereomeric hemiacetals 2. Prompt release of acetate and gamma-aminobutyrate (GABA) in buffer was observed by difference FT-IR spectroscopy upon 355 nm laser flash photolysis. The time-constant for release of GABA was <30 ms. [reaction--see text]     

Local observations of phase singularities in optical fields in waveguide structures

A linear copolymer made of two reciprocally attracting N-monomer blocks collapses to a compact phase through a novel transition, whose exponents are determined with extensive Monte Carlo simulations in two and three dimensions. In the former case, an identification with the statistical geometry of suitable percolation paths allows one to predict that the number of contacts between the blocks grows like N9/16. In the compact phase the blocks are mixed and, in two dimensions, also zipped, in such a way to form a spiral, double chain structure.