Sortin1-hypersensitive mutants link vacuolar-trafficking defects and flavonoid metabolism in Arabidopsis vegetative tissues

Sortin1 is a chemical genetic-hit molecule that causes specific mislocalization of plant and yeast-soluble and membrane vacuolar markers. To better understand its mode of action, we designed a Sortin1-hypersensitive screen and identified several Sortin1-hypersensitive and flavonoid-defective mutants. Mechanistically, Sortin1 mimics the effect of the glutathione inhibitor buthionine sulfoximine and alters the vacuolar accumulation of flavonoids, likely blocking their transport through vacuole-localized ABC transporters. Structure-activity relationship studies conducted in Arabidopsis revealed the structural requirements for Sortin1 bioactivity and demonstrated that overlapping Sortin1 substructures can be used to discriminate between vacuolar-flavonoid accumulations and vacuolar-biogenesis defects. We conclude that Sortin1 is a valuable probe for dissecting novel links among flavonoid transport, vacuolar integrity, and the trafficking of vacuolar targeted cargoes in Arabidopsis.     

Profiling Heparan Sulfate-Heavy Metal Ions Interaction Using Electrochemical Techniques

Heparan sulfate glycosaminoglycans provides extracellular matrix defense against heavy metals cytotoxicity. Identifying the precise glycan sequences that bind a particular heavy metal ion is a key for understanding those interactions. Here, electrochemical and surface characterization techniques were used to elucidate the relation between the glycans structural motifs, uronic acid stereochemistry, and sulfation regiochemistry to heavy metal ions binding. A divergent strategy was employed to access a small library of structurally well-defined tetrasaccharides analogs with different sulfation patterns and uronic acid compositions. These tetrasaccharides were electrochemically grafted onto glassy carbon electrodes and their response to heavy metal ions was monitored by electrochemical impedance spectroscopy. Key differences in the binding of Hg(II), Cd(II), and Pb(II) were associated with a combination of the uronic acid type and the sulfation pattern.     

An algebraic multigrid solver for transonic flow problems

This article presents the latest developments of an algebraic multigrid (AMG) based on full potential equation (FPE) solver for transonic flow problems with emphasis on advanced applications. The mathematical difficulties of the problem are associated with the fact that the governing equation changes its type from elliptic (subsonic flow) to hyperbolic (supersonic flow). The flow solver is capable of dealing with flows from subsonic to transonic and supersonic conditions and is based on structured body-fitted grids approach for treating complex geometries. The computational method was demonstrated on a variety of problems to be capable of predicting the shock formation and achieving residual reduction of roughly an order of magnitude per cycle both for elliptic and hyperbolic problems, through the entire range of flow regimes, independent of the problem size (resolution).     

Small molecule correctors of F508del-CFTR discovered by structure-based virtual screening

Folding correctors of F508del-CFTR were discovered by in silico structure-based screening utilizing homology models of CFTR. The intracellular segment of CFTR was modeled and three cavities were identified at inter-domain interfaces: (1) Interface between the two Nucleotide Binding Domains (NBDs); (2) Interface between NBD1 and Intracellular Loop (ICL) 4, in the region of the F508 deletion; (3) multi-domain interface between NBD1:2:ICL1:2:4. We hypothesized that compounds binding at these interfaces may improve the stability of the protein, potentially affecting the folding yield or surface stability. In silico structure-based screening was performed at the putative binding-sites and a total of 496 candidate compounds from all three sites were tested in functional assays. A total of 15 compounds, representing diverse chemotypes, were identified as F508del folding correctors. This corresponds to a 3% hit rate, ~tenfold higher than hit rates obtained in corresponding high-throughput screening campaigns. The same binding sites also yielded potentiators and, most notably, compounds with a dual corrector-potentiator activity (dual-acting). Compounds harboring both activity types may prove to be better leads for the development of CF therapeutics than either pure correctors or pure potentiators. To the best of our knowledge this is the first report of structure-based discovery of CFTR modulators.     

Monitoring surfactant-induced hemolysis by surface tension measurement

Surface tension measurements were employed to monitor the erythrocyte hemolysis process induced by surfactants. Two types of surfactants were used: the cationic surfactant DTAB and the anionic surfactant SDS. During DTAB-induced hemolysis, the changes in surface tension clearly demonstrate three stages. The first stage is characterized by surface tension increase, which is explained by surfactant removal from the suspending solution, due to adsorption onto cell membranes. In the second stage, surface tension remains constant, implying that equilibrium is attained between the membrane-bound surfactant and the surfactant in solution. The third stage is characterized by surface tension decrease that begins simultaneously with measurable cell-interior release, and lasts until hemolysis is completed. With SDS-induced hemolysis, the same three stages are observed at a low concentration; however, fluctuational increase in surface tension is obtained for higher concentrations. The latter is explained by additional adsorption of surfactant to solubilized membrane fragments.     

The mechanism of hemolysis by surfactants: effect of solution composition

The effect of ionic strength, solute size, and osmolarity of the suspending solution on surfactant-induced erythrocyte hemolysis was studied. Two possible mechanisms of hemolysis were considered: osmotic lysis (affected by solute particle size) and solubilization (not affected by solute particle size). It was found that the ionic strength of the solution has a major effect on the hemolysis process, depending on the surfactant nature and concentration. An increase in the ionic strength lowers the rate of hemolysis induced by DTAB, and enhances SDS-induced hemolysis. Changes in ionic strength have little effect on hemolysis induced by Triton X-100. To explain these effects, it was assumed that the changes in ionic strength differently affect the adsorption of cationic and anionic surfactants to the membrane. The change in the amount of adsorbed surfactant either influences the rate of osmotic hemolysis by changing the membrane permeability or induces a transition from the osmotic mechanism to solubilization. These phenomena were observed for isotonic as well as hypertonic solutions.     

Validity and accuracy in evaluating surface tension of solids by additive approaches

The validity and the accuracy of both the Owens and Wendt and the Lifshitz-van der Waals/acid-base (LW/AB) methods for the determination of surface tensions of solids have been examined for a wide variety of situations. In each case, the allowed range of contact angles that result in positive values of all the square roots of the surface tension components of the solid has first been determined. Then the maximum relative errors in the surface tensions of solids that result from errors in contact angle measurements have been calculated within the allowed range. For both methods, it has been found that the maximum relative errors are minimal if one of the liquids is apolar. In the case of the LW/AB method, minimal errors are obtained if, in addition, the other two liquids are monopolar with different polarities. However, the more similar are the properties of the liquids, the narrower is the allowed range, and the larger are the maximum relative errors.     

Phenols-useful templates for the synthesis of bi-functional orthogonally protected dendron building blocks via solid phase Mitsunobu reaction

Bi-functional dendritic building blocks for convergent dendrimer growth were successfully synthesized from phenolic templates in the solid phase via a Mitsunobu reaction. Each arm of the dendron building block carries an orthogonally protected secondary amine along the arm, and a peripheral primary amine or phenol group (building block type 1) or a tertiary amine junction with orthogonally protected peripheral primary amine or carboxyl groups (building block type 2). The synthetic routes reported in this work are general and applicable for the preparation of diverse building blocks, controlling protection, arm length, and peripheral moieties. These novel dendron units can form unusual dendritic architectures by solid-phase chemistry, which may be incorporated into specific complex structures expanding the scope of dendrimer science.