Electron Transfer and Collision Induced Dissociation of Non-Derivatized and Derivatized Desmosine and Isodesmosine

Electron transfer dissociation (ETD) has attracted increasing interest due to its complementarity to collision-induced dissociation (CID). ETD allows the direct localization of labile post-translational modifications, which is of main interest in proteomics where differences and similarities between ETD and CID have been widely studied. However, due to the fact that ETD requires precursor ions to carry at least two charges, little is known about differences in ETD and CID of small molecules such as metabolites. In this work, ETD and CID of desmosine (DES) and isodesmosine (IDS), two isomers that due to the presence of a pyridinium group can carry two charges after protonation, are studied and compared. In addition, the influence of DES/IDS derivatization with propionic anhydride and polyethyleneglycol (PEG) reagents on ETD and CID was studied, since this is a common strategy to increase sensitivity and to facilitate the analysis by reversed-phase chromatography. Clear differences between ETD and CID of non-derivatized and derivatized-DES/IDS were observed. While CID is mainly attributable to charge-directed fragmentation, ETD is initiated by the generation of a hydrogen atom at the initial protonation site and its subsequent transfer to the pyridinium ring of DES/IDS. These differences are reflected in the generation of complex CID spectra dominated by the loss of small, noninformative molecules (NH₃, CO, H₂O), while ETD spectra are simpler and dominated by characteristic side-chain losses. This constitutes a potential advantage of ETD in comparison to CID when employed for the targeted analysis of DES/IDS in biological samples.

Simulating finger phenomena in porous media with a moving finite element method

The non-equilibrium Richards equation is solved using a moving finite element method in this paper. The governing equation is discretized spatially with a standard finite element method, and temporally with second-order Runge–Kutta schemes. A strategy of the mesh movement is based on the work by Li et al. [R.Li, T.Tang, P.W. Zhang, A moving mesh finite element algorithm for singular problems in two and three space dimensions, Journal of Computational Physics, 177 (2002) 365–393]. A Beckett and Mackenzie type monitor function is adopted. To obtain high quality meshes around the wetting front, a smoothing method which is based on the diffusive mechanism is used. With the moving mesh technique, high mesh quality and high numerical accuracy are obtained successfully. The numerical convergence and the advantage of the algorithm are demonstrated by a series of numerical experiments.     

Efficient near-UV photosensitization of the Tb(III) green luminescence by use of 2-hydroxyisophthalate ligands

The first examples of lanthanide complexes with a 2-hydroxyisophthalate ligand are reported; the blue-emitting ligand acts as a very efficient sensitizer of the Tb(III) green emissions and does so in the near-UV region.     

The Formation of NaYF4 : Er3+, Yb3+ Nanocrystals Studied by In Situ X-ray Scattering: Phase Transition and Size Focusing

β-NaYF₄ nanocrystals are a popular class of optical materials. They can be doped with optically active lanthanide ions and shaped into core-multi-shell geometries with controlled dopant distributions. Here, we follow the synthesis of β-NaYF₄ nanocrystals from α-NaYF₄ precursor particles using in situ small-angle and wide-angle X-ray scattering and ex situ electron microscopy. We observe an evolution from a unimodal particle size distribution to bimodal, and eventually back to unimodal. The final size distribution is narrower in absolute numbers than the initial distribution. These peculiar growth dynamics happen in large part before the α-to-β phase transformation. We propose that the splitting of the size distribution is caused by variations in the reactivity of α-NaYF₄ precursor particles, potentially due to inter-particle differences in stoichiometry. Rate equation modeling confirms that a continuous distribution of reactivities can result in the observed particle growth dynamics.     

Notes on simplicial rook graphs

The simplicial rook graph \(\mathrm{SR}(m,n)\) is the graph of which the vertices are the sequences of nonnegative integers of length m summing to n, where two such sequences are adjacent when they differ in precisely two places. We show that \(\mathrm{SR}(m,n)\) has integral eigenvalues, and smallest eigenvalue \(s = \max \left( -n, -{m \atopwithdelims ()2}\right) \), and that this graph has a large part of its spectrum in common with the Johnson graph \(J(m+n-1,n)\). We determine the automorphism group and several other properties.     

Recent progress in the LC–MS/MS analysis of oxidative stress biomarkers

The presence of a dynamic and balanced equilibrium between the production of reactive oxygen (ROS) and nitrogen (RNS) species and the in-house antioxidant defense mechanisms is characteristic for a healthy body. During oxidative stress (OS), this balance is switched to increased production of ROS and RNS, exceeding the capacity of physiological antioxidant systems. This can cause damage to biological molecules, leading to loss of function and even cell death. Nowadays, there is increasing scientific and clinical interest in OS and the associated parameters to measure the degree of OS in biofluids. An increasing number of reports using LC–MS/MS methods for the analysis of OS biomarkers can be found. Since bioanalysis is usually complicated by matrix effects, various types of cleanup procedures are used to effectively separate the biomarkers from the matrix. This is an essential part of the analysis to prepare a reproducible and homogenous solution suitable for injection onto the column. The present review gives a summary of the chromatographic methods used for the determination of OS biomarkers in both urine and plasma, serum, and whole blood samples. The first part mainly describes the biological background of the different OS biomarkers, while the second part reports examples of chromatographic methods for the analysis of different metabolites connected with OS in biofluids, covering a period from 2015 till early 2020. The selected examples mainly include LC–MS/MS methods for isoprostanes, oxidized proteins, oxidized lipoproteins, and DNA/RNA biomarkers. The last part explains the clinical relevance of this review.     

Green Luminescence of Divalent Europium in the Hydride Chloride EuHCl

Luminescence properties of divalent europium in the mixed‐anion hydride chloride EuHCl were studied for the first time. Olive‐green single crystals of EuHCl (PbFCl‐type structure: tetragonal, P4/nmm, a = 406.58(3) pm, c = 693.12(5) pm, c/a = 1.705, Z = 2) resulted from the reaction of elemental europium (Eu), sodium hydride (NaH) and sodium chloride (NaCl), while powder samples were prepared from the binary components europium dihydride (EuH₂) and dichloride (EuCl₂). Low temperature X‐ray powder diffraction proved the absence of phase transitions for 12(2) K ≤ T ≤ 295(2) K. Bright green emission was observed under UV‐excitation and assigned to the 4f⁶5d¹–4f⁷ transition of divalent europium. Temperature‐dependent luminescence absorption and emission, as well as lifetime measurements were carried out on single crystal and powder samples. Surprisingly, only limited concentration quenching was found. Additionally, two emission bands (485 and 510 nm) are observed, whose intensity ratio depends strongly on temperature. In order to explain this behavior for a single Eu²⁺ site, we suggest either a dynamical Jahn–Teller effect in the excited 5d¹ state or emission from both a 4f⁶5d¹ state and a trapped exciton state.     

Enthalpy and entropy of nanoparticle association from temperature-dependent cryo-TEM

Quantum dots form equilibrium structures in liquid dispersions, due to thermodynamic forces that are often hard to quantify. Analysis of these structures, visualized using cryogenic electron microscopy, yields their formation free energy. Here we show that the nanoparticle interaction free energy can be further separated into the enthalpic and entropic contributions, using the temperature dependence of the assembled structures. Monodisperse oleic acid-capped PbSe nanoparticles dispersed in decalin were used as a model system, and the temperature-dependent equilibrium structures were imaged by cryo-TEM, after quenching from different initial temperatures. The interaction enthalpy and entropy follow from van 't Hoff's exact equation for the temperature dependence of thermodynamic equilibria, now applied to associating nanoparticles. The enthalpic component gives the magnitude of the contact interaction, which is crucial information in understanding the energetics of the self-assembly of nanoparticles into ordered structures.