Investigation of the influence of spacer arm on the structural evolution of affinity ligands supported on agarose

The influence of the spacer arm on the interaction between agarose and a supported ligand was investigated through molecular dynamics for a combination of several spacers. The spacers differ for degree of hydrophobicity, length, and chemical composition, which was varied through insertion of thio, ether, and CH(2) groups. Agarose was modeled through a modified Glycam force field, whose parameters were determined through ab initio calculations. The structural model of agarose used for the calculations was obtained through MD studies of the conformational evolution of several agarose single and double helixes. The simulations showed that a modification of the spacer properties could determine a change of the stable structure of the ligand with respect to the support. In particular, if the spacer is hydrophilic and rigid, the favored structure is with extended spacer and solvated ligand. Either increasing the spacer length, and thus its flexibility, or decreasing its solvation free energy, which corresponds to diminishing its affinity for water, rapidly leads to a conformational change in which the ligand adsorbs on agarose. Interestingly, we found that if the spacer is long and hydrophilic, a third metastable structure, in which the spacer is sandwiched between the ligand and agarose, is possible. Simulations of several ligands adsorbed on neighboring sites on agarose showed that if the support is not held fixed through restraints, the interaction force between vicinal ligands is sufficient to determine a major conformational change of the system.     

Multielement Analytical Spectroscopy in Plant Ionomics Research

Abstract: The study of the ionome (ionomics) is defined as quantitative and simultaneous measurement of the element composition of living organisms and changes in this composition in response to physiological stimuli, development stage, and genetic modifications (Salt et al., Ann. Rev. Plant Biol., Vol. 59, 2008). The necessity of understanding the regulation processes of elements in the organisms demands determination of many elements in the organism, tissue, and cell (Baxter, Plant Biol., Vol. 12, 2009). A prospect for ionomics is environmental pollution where great variety of conditions and pollutants exist resulting in concentration and interelemental changes in the plant ionome. The capabilities of and problems with several multielement analytical techniques, including instrumental neutron activation analysis (INAA), X-ray fluorescence, inductively coupled plasma–atomic emission spectrometry (ICP-AES), inductively coupled plasma–mass spectrometry (ICP-MS), and atomic absorption spectrometry (AAS), which are adequate and most promising in ionomic and environmental studies of plants, are reviewed. References are confined mainly to the last 10–15 years. Information about concentrations, roles, binding forms, and pollution sources of the elements and comparison between methods with respect to limits of detection, determined elements, interferences, and economic considerations are tabulated. Some combinations of instrumental techniques supplementing each other are highly valued, namely, ICP-MS and ICP-AES and INAA and AAS or ICP-AES.     

Recent Advances in Recovery of Lycopene from Tomato Waste: A Potent Antioxidant with Endless Benefits

Growing attention to environmental protection leads food industries to adopt a model of “circular economy” applying safe and sustainable technologies to recover, recycle and valorize by-products. Therefore, by-products become raw material for other industries. Tomato processing industry produces significant amounts of by-products, consisting of skins and seeds. Tomato skin is very rich in lycopene, and from its seeds, high nutritional oil can be extracted. Alternative use of the two fractions not only could cut disposal costs but also allow one to extract bioactive compounds and an oil with a high nutritional value. This review focused on the recent advance in extraction of lycopene, whose beneficial effects on health are widely recognized.     

Point interactions for 3D sub-Laplacians

In this paper we show that, for a sub-Laplacian Δ on a 3-dimensional manifold M, no point interaction centered at a point $q_0\in M$ exists. When M is complete w.r.t. the associated sub-Riemannian structure, this means that Δ acting on $C_0^{\infty }(M?\{q_0\})$ is essentially self-adjoint in $L^2(M)$. A particular example is the standard sub-Laplacian on the Heisenberg group. This is in stark contrast with what happens in a Riemannian manifold N, whose associated Laplace-Beltrami operator acting on $C_0^{\infty }(N?\{q_0\})$ is never essentially self-adjoint in $L^2(N)$, if $\dim ?N\le 3$. We then apply this result to the Schrödinger evolution of a thin molecule, i.e., with a vanishing moment of inertia, rotating around its center of mass.     

Benchmarking culture in Europe: A data envelopment analysis approach to identify city-specific strengths

Culture is an integral part of a city's quality of life, a driver of urban change, and a genuine economic sector. To support benchmarking of urban culture and facilitate peer learning amongst policymakers, the European Commission has recently created the ‘Cultural and Creative Cities Index’. While this index builds on a standardised method to aggregate 29 indicators for the 155 selected cities, it is explicitly acknowledged that a ‘gold standard’ for a ‘Cultural and Creative City’ does not exist. Instead, different approaches should be allowed for in capturing cities’ cultural and creative vitality. This is the point of departure for this paper, which employs a Benefit-of-the-Doubt (BoD) modelling approach to allow cities to combine such respect for performance diversity with peer learning and benchmarking. Expert-based weights are used to provide expert-consistent bounds for the shares of key dimensions in a city's final BoD index value. We identify three city clusters, amongst which there are large performance differences. Accordingly, we focus on the within-group identification of peer cities and target values, which we illustrate in more detail for Bilbao, Krak?w and Umeå, towards the formulation of fit-for-purpose policy measures that can support culture-led development.     

Oleogels—Their Applicability and Methods of Characterization

Oleogels or, more precisely, non-triglyceride structured lipid phases have been researched excessively in the last decade. Yet, no comprehensive knowledge base has emerged, allowing technology elevation from the laboratory bench into the industrial food application. That is partly due to insufficient characterization of the structuring systems studied. Examining a single composition decided upon by arbitrary methods does not stimulate progress in the research and technology area. A framework that gives much better guidance to product applications can easily be derived. For example, the incremental structure contribution concept is advocated as a parameter to compare the potency of structuring systems. These can straightforwardly be determined by combining solubility data and structural measurements in the recommended manner. The current method to determine the oil-binding capacity suffers from reproducibility and relevance. A newly developed method is suggested to overcome these shortcomings. The recommended new characterization of oleogels should contribute to a more comprehensive knowledge base necessary for product innovations.     

Acrolein and Copper as Competitive Effectors of α-Synuclein

Mounting evidence supports the role of amyloidogenesis, oxidative stress, and metal dyshomeostasis in the development of neurodegenerative disorders. Parkinson's Disease is characterized by α-synuclein (αSyn) accumulation and aggregation in brain regions, also promoted by Cu²⁺. αSyn is modified by reactive carbonyl species, including acrolein (ACR). Notwithstanding these findings, the interplay between ACR, copper, and αSyn has never been investigated. Therefore, we explored more thoroughly the effects of ACR on αSyn using an approach based on LC-MS/MS analysis. We also evaluated the influence of Cu²⁺ on the protein carbonylation and how the ACR modification impacts the Cu²⁺ binding and the production of Reactive Oxygen Species (ROS). Finally, we investigated the effects of ACR and Cu²⁺ ions on the αSyn aggregation by dynamic light scattering and fluorescence assays. Cu²⁺ regioselectively inhibits the modification of His50 by ACR, the carbonylation lowers the affinity of His50 for Cu²⁺ and ACR inhibits αSyn aggregation both in the presence and in the absence of Cu²⁺.