Designing Self-Assembled Rosettes: Why Ammeline is a Superior Building Block to Melamine

In supramolecular chemistry, the rational design of self-assembled systems remains a challenge. Herein, hydrogen-bonded rosettes of melamine and ammeline have been theoretically examined by using dispersion-corrected density functional theory (DFT-D). Our bonding analyses, based on quantitative Kohn–Sham molecular orbital theory and corresponding energy decomposition analyses (EDA), show that ammeline is a much better building block than melamine for the fabrication of cyclic complexes based on hydrogen bonds. This superior capacity is explained by both stronger hydrogen bonding and the occurrence of a strong synergy.     

Non-Toxic Dimeric Peptides Derived from the Bothropstoxin-I Are Potent SARS-CoV-2 and Papain-like Protease Inhibitors

The COVID-19 outbreak has rapidly spread on a global scale, affecting the economy and public health systems throughout the world. In recent years, peptide-based therapeutics have been widely studied and developed to treat infectious diseases, including viral infections. Herein, the antiviral effects of the lysine linked dimer des-Cys¹¹, Lys¹²,Lys¹³-(pBthTX-I)₂K ((pBthTX-I)₂K)) and derivatives against SARS-CoV-2 are reported. The lead peptide (pBthTX-I)₂K and derivatives showed attractive inhibitory activities against SARS-CoV-2 (EC₅₀ = 28–65 µM) and mostly low cytotoxic effect (CC₅₀ > 100 µM). To shed light on the mechanism of action underlying the peptides’ antiviral activity, the Main Protease (M^pro) and Papain-Like protease (PL^pro) inhibitory activities of the peptides were assessed. The synthetic peptides showed PL^pro inhibition potencies (IC₅₀s = 1.0–3.5 µM) and binding affinities (K_d = 0.9–7 µM) at the low micromolar range but poor inhibitory activity against M^pro (IC₅₀ > 10 µM). The modeled binding mode of a representative peptide of the series indicated that the compound blocked the entry of the PL^pro substrate toward the protease catalytic cleft. Our findings indicated that non-toxic dimeric peptides derived from the Bothropstoxin-I have attractive cellular and enzymatic inhibitory activities, thereby suggesting that they are promising prototypes for the discovery and development of new drugs against SARS-CoV-2 infection.     

The saturation scale and its x-dependence from Λ polarization studies

The transverse polarization of forward Λ   hyperons produced in high-energy p–A$p\text{–}A$ collisions is expected to display an extremum at a transverse momentum around the saturation scale. This was first observed within the context of the McLerran–Venugopalan model which has an x  -independent saturation scale. The extremum arises due to the kt$k_t$-odd nature of the polarization-dependent fragmentation function, which probes approximately the derivative of the dipole scattering amplitude. The amplitude changes most strongly around the saturation scale, resulting in a peak in the polarization. We find that the observation also extends to the more realistic case in which the saturation scale Qs$Q_s$ is x-dependent. Since a range of x   and therefore Qs$Q_s$ values is probed at a given transverse momentum and rapidity, this result is a priori not expected. Moreover, the measurement of Λ   polarization over a range of xF$x_F$ values actually provides a direct probe of the x-dependence of the saturation scale. This novel feature is demonstrated for typical LHC kinematics and for several phenomenological models of the dipole scattering amplitude. We show that although the measurement will be challenging, it may be feasible at LHC. The situation at RHIC is not favorable, because the peak will likely be at too low transverse momentum of the Λ to be a trustworthy measure of the saturation scale.     

Generation of high quality tunable Bessel beams using a liquid-immersion axicon

By immersing a conventional glass axicon in index-matching liquid, we generated high quality, tunable, quasi-non-diffracting Bessel beams. The aberrations resulting from the roundness of the axicon tip are minimized when a large base angle is used in liquid-immersion. This configuration also allows coarse and fine tunability through changing the liquid and adjusting the temperature, respectively. Our experimental results match very well with calculated intensity profiles. We succeeded to generate two-meter long plasma channels in air by focusing femtosecond laser pulses with the liquid-immersion axicon.     

Internal Architecture and Adsorption Sites of Violet Lander Molecules Assembled on Native and KBr‐Passivated InSb(001) Surfaces

The adsorption of individual Violet Lander molecules self‐assembled on the c(8×2) reconstructed InSb(001) surface in its native form and on the surface passivated with one to three monolayers of KBr is investigated by means of low‐temperature scanning tunneling microscopy (STM). Preferred adsorption sites of the molecules are found on flat terraces as well as at atomic step edges. For molecules immobilized on flat terraces, several different conformations are identified from STM images acquired with submolecular resolution and are explained by the rotation of the 3,5‐di‐tert‐butylphenyl groups around σ bonds, which allows adjustment of the molecular geometry to the anisotropic substrate structure. Formation of ordered molecular chains is found at steps running along substrate reconstruction rows, whereas at the steps oriented perpendicularly no intermolecular ordering is recorded. It is also shown that the molecules deposited at two or more monolayers of the epitaxial KBr spacer do not have any stable adsorption sites recorded with STM. Prospects for the manipulation of single molecules by using the STM tip on highly anisotropic substrates are also explored, and demonstrate the feasibility of controlled lateral displacement in all directions.     

Effect of PCBM Concentration on Photoluminescence Properties of Composite MEH‐PPV/PCBM Nanoparticles Investigated by a Franck–Condon Analysis of Single‐Particle Emission Spectra

The emission of composite conjugated polymer (MEH‐PPV)/fullerene (PCBM) nanoparticles is investigated by single particle spectroscopy (SPS), and changes in vibronic structure with nanoparticle composition are evaluated by means of a detailed Franck–Condon analysis. Consistent with previous reports we find that the emission spectra can be modeled as the superposition of two types of emitters, one with aggregate character and one with molecular character. Major findings from the fitting of the SPS data to a Franck–Condon model are that 1) the occurrence of each of the two types of emitters changes with nanoparticle composition to the point that no aggregate emitters are detected (at 50 wt % PCBM), 2) at the highest PCBM doping levels (75 wt % PCBM) aggregate emitters reappear due to nanoscale phase separation in the composite nanoparticles, 3) the molecular emitters show small Huang–Rhys factors that increase with PCBM doping, indicative of extensive delocalization and exciton migration that is reduced by the disorder introduced in the polymer material by PCBM doping and 4) the aggregate emitters show large Huang–Rhys factors, indicative of the localized nature of these energy trap sites, with a broad distribution of values of these Huang–Rhys factors. The latter observation suggests a broad heterogeneous distribution of aggregate morphologies in blended conducting polymer materials, which can be attributed to variations in polymer chain folding and stacking at the aggregate sites. The reported results obtained by the SPS approach show how blending conjugated polymers with fullerenes at various doping levels induces changes in interchain interactions and aggregate site density even at length scales below a few tens of nanometers that affect conjugated polymer material properties, an observation that has gone unnoticed in bulk studies of blended conjugated polymer films.     

Reactive Distillation: An Attractive Alternative for the Synthesis of Unsaturated Polyester

Summary: Unsaturated polyester is traditionally produced in a batch wise operating reaction vessel connected to a distillation unit. An attractive alternative for the synthesis of unsaturated polyester is a reactive distillation. To value such alternative synthesis route reliable process models need to be developed. In this paper, the strategy is described for the development of the reactive distillation model. Essential parts of the reactive distillation model are kinetic and thermodynamic which are subsequently validated with the experimental data of the traditional batch process such as acid value of the polyester, weight of the distillate and glycol concentration in the distillate. We find that the models predict these important variables reliably. Unsaturated polyester production time is around 12 hours in the traditional batch process. However, the simulation study of the reactive distillation process shows that the total production time of unsaturated polyester in a continuous reactive distillation system is between 1.5 hours to 2 hours for the same product quality as during batch production. The equilibrium conversion is raised by 7% compared to the traditional batch process. The model demonstrated that reactive distillation has the potential to intensify the process by factor of 6 to 8 in comparison to the batch reactor.     

Analysis on heat stress-induced hyperphosphorylation of stathmin at serine 37 in Jurkat cells by means of two-dimensional gel electrophoresis and tandem mass spectrometry

Two-dimensional gel electrophoresis (2-DE) and tandem mass spectrometry were successfully used for determination of a phosphorylation site of stathmin induced by heat stress to Jurkat cells of a human T lymphoblastic cell line. The cells were incubated for 30 min at 41 degrees C up to 45 degrees C in a serum free 4-(2-hydroxyethyl)-1-piperazineethanesulfonic acid (HEPES) buffered culture medium. The intracellular soluble proteins were separated by 2-DE, and some of the proteins increased their abundance by heat stress. Those proteins were identified to be calmodulin, protein kinase C substrate, thymosin beta-4 and F-actin capping protein beta-subunit by peptide mass fingerprinting (PMF) with matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF-MS). On the contrary, protein phosphatase 2C gamma-isoform, nucleophosmin, translationally controlled tumor protein, Rho GDP-dissociation inhibitor-1, eukaryotic translation initiation factors 5A and 3A subunit 2, ubiquitin-like protein SMT 3B and chloride intracellular channel protein-1 were decreased their abundance. A protein spot of M(r) 18,000 and pI 5.9 was markedly increased at temperatures higher than 43 degrees C at which the cells were led to apoptosis. The spot was identified to be stathmin of a signal relay protein which has a function of sequestering microtubule. MALDI-quadrupole ion trap (QIT)-TOF-MS/MS and immunoblotting with a monoclonal antibody specific for a phosphorylation site of stathmin showed that the spot was a phosphorylated stathmin at serine 37 (Ser 37). The phosphorylation was suppressed by treatment of cells with olomoucine of an inhibitor specific for cyclin dependent kinase (Cdk-1). These results strongly suggest that heat stress activates Cdk-1 which phosphorylates Ser 37 on the stathmin molecule. The phosphorylation may cause the functional loss of stathmin for dynamic microtubule assembly and leads Jurkat cells to cell cycle arrest and apoptosis.     

Implementation of garlic cryopreservation techniques in the national plant germplasm system

The USDA-ARS National Plant Germplasm System (NPGS) maintains more than 200 Allium sativum (garlic) accessions at the Western Regional Plant Introduction Station in Pullman, WA. All accessions must be grown out in the field annually since garlic plants from these accessions do not reliably produce seeds and bulbs do not store well. Shoot tips excised from garlic cloves can be successfully cryopreserved using either Plant Vitrification Solution 2 (PVS2; 15 percent v/v DMSO, 15 percent v/v ethylene glycol, 30 percent v/w glycerol, 0.4 M sucrose) or Plant Vitrification Solution 3 (PVS3; 50 percent v/w sucrose, 50 percent v/w glycerol). We compared regrowth of shoot tips representing diverse garlic germplasm after exposure to either PVS2 or PVS3 during the cryopreservation procedure. At the USDA-ARS National Center for Genetic Resources Preservation, a component of the NPGS, we consider accessions successfully preserved if a minimum of 40 percent of explants exhibit regrowth after liquid nitrogen exposure and at least 60 viable shoot tips remain in long-term storage. Ten of twelve diverse garlic accessions were successfully cryopreserved using either PVS2 or PVS3 as cryoprotectants. Five genotypes had the best post liquid nitrogen regrowth after exposure to PVS2, four genotypes had the best regrowth after exposure to PVS3, and three genotypes performed equally well using either cryoprotectant solution. This project is part of an ongoing program to cryopreserve accessions of NPGS clonal crop collections.