Size-dependent secondary nucleation and amplification of α-synuclein amyloid fibrils

The size of the amyloid seeds is known to modulate their autocatalytic amplification and cellular toxicity. However, the seed size-dependent secondary nucleation mechanism, toxicity, and disease-associated biological processes mediated by α-synuclein (α-Syn) fibrils are largely unknown. Using the cellular model and in vitro reconstitution, we showed that the size of α-Syn fibril seeds not only dictates its cellular internalization and associated cell death; but also the distinct mechanisms of fibril amplification pathways involved in the pathological conformational change of α-Syn. Specifically, small-sized fibril seeds showed elongation possibly through monomer addition at the fibril termini; whereas longer fibrils template the fibril amplification by surface-mediated nucleation as demonstrated by super-resolution microscopy. The distinct mechanism of fibril amplification, and cellular uptake along with toxicity suggest that breakage of fibrils into different sizes of seeds determine the underlying pathological outcome of synucleinopathies.

Reactive Crystallization Kinetics of K2SO4 from Picromerite-Based MgSO4 and KCl

In this work, the kinetic parameters, the degrees of initial supersaturation (S0) and the profiles of supersaturation (S) were determined for the reactive crystallization of K2SO4 from picromerite (K2SO4.MgSO4.6H2O) and KCl. Different reaction temperatures between 5 and 45 °C were considered, and several process analytical techniques were applied. Along with the solution temperature, the crystal chord length distribution (CLD) was continuously followed by an FBRM probe, images of nucleation and growth events as well as the crystal morphology were captured, and the absorbance of the solution was measured via ATR-FTIR spectroscopy. In addition, the ion concentrations were analyzed. It was found that S0 is inversely proportional to the reactive crystallization temperature in the K+, Mg2+/Cl−, SO42−//H2O system at 25 °C, where S0 promotes nucleation and crystal growth of K2SO4 leading to a bimodal CLD. The CLD was converted to square-weighted chord lengths for each S0 to determine the secondary nucleation rate (B), crystal growth rate (G), and suspension density (MT). By correlation, from primary nucleation rate (Bb) and G with S0, the empirical parameters b = 3.61 and g = 4.61 were obtained as the order of primary nucleation and growth, respectively. B versus G and MT were correlated to the reaction temperature providing the rate constants of B and respective activation energy, E = 69.83 kJ∙mol−1. Finally, a general Equation was derived that describes B with parameters KR = 13,810.8, i = 0.75 and j = 0.71. The K2SO4 crystals produced were of high purity, containing maximal 0.51 wt% Mg impurity, and were received with ~73% yield at 5 °C.

Studies on nucleation and crystal growth kinetics of plutonium(IV) oxalatex

A new method is developed to calculate the dilution ratio N of the two reactant solutions during nucleation rate determination. When the initial apparent supersaturation ratio S N = f(N) in the dilution tank is controlled between 1.66 and 1.67, the counted nuclei is the most, both nuclei dissolving and secondary nucleation avoided satisfactorily. Based on this methoed, Plutonium(IV) oxalate is precipitated by mixing equal volumes of tetravalent plutonium nitrate and oxalic acid solutions. Experiments are carried out by varying the supersaturation ratio from 8.37 to 22.47 and temperature from 25 to 50 °C. The experimental results show that the nucleation rate of plutonium(IV) oxalate in the supersaturation range cited above can be expressed by the equation R N = A N exp(−E a /RT)exp[−B/(ln S)2], where A N = 4.8 × 1023 m−3 s−1 , and E a = 36.2 kJ mol−1, and B = 20.2. The crystal growth rate of plutonium(IV) oxalate is determined by adding seed crystals into a batch crystallizer. The crystal growth rate can be expressed by equation G(t) = k g exp(−E’ a /RT) (c − c eq) g , where k g = 7.3 × 10−7 (mol/L)−1.1(m/s), E’ a = 25.7 kJ mol−1, and g = 1.1.

Structure-based discovery of small molecule inhibitors of the autocatalytic proliferation of α-synuclein aggregates

The presence of amyloid fibrils of α-synuclein is closely associated with Parkinson’s disease and related synucleinopathies. It is still very challenging, however, to systematically discover small molecules that prevent the formation of these aberrant aggregates. Here, we describe a structure-based approach to identify small molecules that specifically inhibit the surface-catalyzed secondary nucleation step in the aggregation of α-synuclein by binding to the surface of the amyloid fibrils. The resulting small molecules are screened using a combination of kinetic and thermodynamic assays for their ability to bind α-synuclein fibrils and prevent the further generation of toxic oligomers. This study demonstrates that the combination of structure-based and kinetic-based drug discovery methods can lead to the identification of small molecules that selectively inhibit the autocatalytic proliferation of α-synuclein aggregates.

Methionine controlled impediment of secondary nucleation leading to nonclassical growth within self-assembled de novo gold nanoparticles

The conventional key steps for seed mediated growth of noble metal nanostructures involve classical and nonclassical nucleation. Furthermore, the surface of the seed catalytically enhances the secondary nucleation involving Au+ to Au0reduction, thus providing in-plane growth of seed. In contrast to this well-established growth mechanism, herein we report the unique case of methionine (Met) controlled seed mediated growth reaction, which rather proceeds via impeding secondary nucleation in presence of citrate stabilized gold nanoparticle (AuNP). The interaction between the freshly generated Au+ and thioether group of Met in the medium restricts the secondary nucleation process of further seed catalyzed Au+ reduction to Au0. This incomplete conversion of Au+, as confirmed by X-ray photoelectron spectroscopy (XPS), results in a significant enhancement of the zeta (z) potential even at low Met concentration. Nucleation of in situgenerated small-sized particles (nAuNPs) takes place on the parent seed surface followed by their segregation from the seed. Self-assembly process of these nAuNPs arises from the aurophilic interaction among the Au+. Furthermore, the time dependent growth of smaller particles to larger sized particles through assembly and merging within the same self-assembly validates the non-classical growth. This strategy has been successfully extended towards the seed mediated growth reaction of AuNP in presence of three bio-inspired decameric peptides having varying number of Met residues. The study confirms the nucleation strategy even in presence of single Met residue in the peptide and also the self-assembly of nucleated particles with increasing Met residues within the peptide.

A Machine Learning Approach to Identify Specific Small Molecule Inhibitors of Secondary Nucleation in alpha-Synuclein Aggregation

Drug development is an increasingly active area of machine learning application, due to the high attrition rates of conventional drug discovery pipelines. This issue is especially pressing for neurodegenerative diseases where very few disease modifying drugs have been approved, demonstrating a need for novel and efficient approaches to drug discovery in this area. However, whether or not machine learning methods can fulfil this role remains to be demonstrated. To explore this possibility, we describe a machine learning approach to identify specific inhibitors of the proliferation of alpha-synuclein aggregates through secondary nucleation, a process that has been implicated in Parkinson's disease and related synucleinopathies. We use a combination of docking simulations followed by machine learning to first identify initial hit compounds and then explore the chemical space around these compounds. Our results demonstrate that this approach leads to the identification of novel chemical matter with an improved hit rate and potency over conventional similarity search approaches.

Methionine-stabilized nonclassical growth within self-assembled de novo gold nanoparticles in conjunction with secondary nucleation inhibition

The key steps for seed mediated growth of noble metal nanoparticles involve primary and secondary nucleation, which depends upon the energy barrier and ligand supersaturation standards of the medium. Herein we report the unique case of methionine (Met) controlled growth reaction, which rather proceeds via impeding secondary nucleation in presence of citrate stabilized gold nanoparticle (AuNP). The interaction between freshly generated Au+ and thioether group of Met in the medium restricts the secondary nucleation process involving further Au+ reduction. This incomplete conversion of Au+ results in a significant enhancement of the zeta (ζ) potential even at low concentration of Met. Furthermore, the aurophilic interaction of Au+ controls the self-assembly process of the in situ generated emissive nucleated particles. Nucleation of primary particles on seed surface, their segregation and time dependent conversion to larger particles within self-assembly confirm the nonclassical growth, which has further been explored with Met containing bio-inspired peptides.