Molecular Dynamics of Lysozyme Amyloid Polymorphs Studied by Incoherent Neutron Scattering

Lysozyme amyloidosis is a hereditary disease, which is characterized by the deposition of lysozyme amyloid fibrils in various internal organs. It is known that lysozyme fibrils show polymorphism and that polymorphs formed at near-neutral pH have the ability to promote more monomer binding than those formed at acidic pH, indicating that only specific polymorphs become dominant species in a given environment. This is likely due to the polymorph-specific configurational diffusion. Understanding the possible differences in dynamical behavior between the polymorphs is thus crucial to deepen our knowledge of amyloid polymorphism and eventually elucidate the molecular mechanism of lysozyme amyloidosis. In this study, molecular dynamics at sub-nanosecond timescale of two kinds of polymorphic fibrils of hen egg white lysozyme, which has long been used as a model of human lysozyme, formed at pH 2.7 (LP27) and pH 6.0 (LP60) was investigated using elastic incoherent neutron scattering (EINS) and quasi-elastic neutron scattering (QENS). Analysis of the EINS data showed that whereas the mean square displacement of atomic motions is similar for both LP27 and LP60, LP60 contains a larger fraction of atoms moving with larger amplitudes than LP27, indicating that the dynamical difference between the two polymorphs lies not in the averaged amplitude, but in the distribution of the amplitudes. Furthermore, analysis of the QENS data showed that the jump diffusion coefficient of atoms is larger for LP60, suggesting that the atoms of LP60 undergo faster diffusive motions than those of LP27. This study thus characterizes the dynamics of the two lysozyme polymorphs and reveals that the molecular dynamics of LP60 is enhanced compared with that of LP27. The higher molecular flexibility of the polymorph would permit to adjust its conformation more quickly than its counterpart, facilitating monomer binding.

Quantitative Neutron Dark-Field Imaging of Milk: A Feasibility Study

Scattering studies of milk and milk products, which are highly relevant food products on the global market, are often utilized and reported in literature to investigate and understand the subtle microscopic structural differences between dairy samples. These structural features determine the physical properties and ultimately the texture of milk products and, thus, also influence the consumer’s experience. Small-angle neutron scattering is a prominent example, which enables observations of length scales, which convey proteins and fat globules in food-grade milk. In addition, deuteration enables contrast variations between the constituents of dairy products. In this study, we investigate the potential of probing small-angle neutron scattering from milk samples through quantitative neutron dark-field imaging using grating interferometry, to establish the feasibility of studying, in particular, fat globules and milk gel structures with this spatially resolved scattering technique.

Small Angle Neutron Scattering Reveals Wood Nanostructural Features in Decay Resistant Chemically Modified Wood

While it is known that modifying the hydroxyls in wood can improve the decay resistance; what is often missing in the literature is whether these modifications alter wood nanostructure, and how these changes correlate to the improved decay resistance. Here, we used small angle neutron scattering (SANS) to probe the effects of alkylene oxide modifications on wood nanostructure. Southern pine wood samples were chemically modified to various weight percentage gains (WPG) using four different alkylene oxides: propylene oxide (PO), butylene oxide (BO), epichlorohydrin (EpH), and epoxybutene (EpB). After modification, the samples were water leached for 2 weeks to remove any unreacted reagents or homopolymers and then equilibrium moisture content (EMC) was determined at 90% relative humidity (RH) and 27°C. Laboratory soil block decay evaluations against the brown rot fungus Gloeophyllum trabeum were performed to determine weight loss and biological efficacy of the modifications. To assist in understanding the mechanism, SANS was used to study samples that were fully immersed in deuterium oxide (D2O). These measurements revealed that the modifications altered the water distribution inside the cell wall, and the most effective modifications reduced the microfibril swelling and preserved the microfibril structure even after being subject to 12 weeks of brown rot exposure.

Two Methods to Study Inelastic Neutron-Scattering Measurements Based on ωn(q) versus S(q, ω) Applied to the Magnetic Open Honeycomb Lattice Material Tb2Ir3Ga9

This work describes two methods to fit the inelastic neutron-scattering spectrum S(q, ω) with wavector q and frequency ω. The common and well-established method extracts the experimental spin-wave branches ωn(q) from the measured spectra S(q ,ω) and then minimizes the difference between the observed and predicted frequencies. When n branches of frequencies are predicted but the measured frequencies overlap to produce only m < n branches, the weighted average of the predicted frequencies must be compared to the observed frequencies. A penalty is then exacted when the width of the predicted frequencies exceeds the width of the observed frequencies. The second method directly compares the measured and predicted intensities S(q ,ω) over a grid {q i , ωj} in wavevector and frequency space. After subtracting background noise from the observed intensities, the theoretical intensities are scaled by a simple wavevector-dependent function that reflects the instrumental resolution. The advantages and disadvantages of each approach are demonstrated by studying the open honeycomb material Tb2Ir3Ga9.

Open-Bundle Structure as the Unfolding Intermediate of Cytochrome c′ Revealed by Small Angle Neutron Scattering

The dynamic structure changes, including the unfolding, dimerization, and transition from the compact to the open-bundle unfolding intermediate structure of Cyt c′, were detected by a small-angle neutron scattering experiment (SANS). The structure of Cyt c′ was changed into an unstructured random coil at pD = 1.7 (Rg = 25 Å for the Cyt c′ monomer). The four-α-helix bundle structure of Cyt c′ at neutral pH was transitioned to an open-bundle structure (at pD ~13), which is given by a numerical partial scattering function analysis as a joint-clubs model consisting of four clubs (α-helices) connected by short loops. The compactly folded structure of Cyt c′ (radius of gyration, Rg = 18 Å for the Cyt c′ dimer) at neutral or mildly alkaline pD transited to a remarkably larger open-bundle structure at pD ~13 (Rg = 25 Å for the Cyt c′ monomer). The open-bundle structure was also supported by ab initio modeling.

High Hydrostatic Pressure–A Key Element to Investigate Molecular Dynamics in Biosystems

Temperature variations are often used to investigate molecular dynamics through neutron scattering in biosystems, as the required techniques are well-known. Hydrostatic pressure is much less applied due to technological difficulties. However, within the last decade, a reliable and suitable equipment has been developed at the Institut Laue Langevin, Grenoble, France, which is now available on different instruments. Here, an overview on its application in relation with elastic incoherent neutron scattering to study, for instance, the impact of transitions on atomic mobility in biological samples, is presented, as well as the conclusions that can be drawn therefrom.

Sodium Diffusion and Dynamics in Na2Ti3O7: Neutron Scattering and Ab-initio Simulations

We have performed quasielastic and inelastic neutron scattering (QENS and INS) measurements from 300 K to 1173 K to investigate the Na-diffusion and underlying host dynamics in Na2Ti3O7. The QENS...

Monitoring the CO2 Enhanced Oil Recovery Process at the Nanoscale: An In Situ Neutron Scattering Study

The CO2 Enhanced Oil Recovery (CO2-EOR) process was monitored in real time at the nanoscale by neutron scattering. This was achieved by in situ injection of supercritical CO2 into a...