2DIR spectroscopy of human amylin fibrils reflects stable β-sheet structure

The aggregation of human amylin to form amyloid contributes to islet β-cell dysfunction in type 2 diabetes. Studies of amyloid formation have been hindered by the low structural resolution or relatively modest time resolution of standard methods. Two-dimensional infrared (2DIR) spectroscopy, with its sensitivity to protein secondary structures and its intrinsic fast time resolution, is capable of capturing structural changes during the aggregation process. Moreover, isotope labeling enables the measurement of residue-specific information. The diagonal line widths of 2DIR spectra contain information about dynamics and structural heterogeneity of the system. We illustrate the power of a combined atomistic molecular dynamics simulation and theoretical and experimental 2DIR approach by analyzing the variation in diagonal line widths of individual amide I modes in a series of labeled samples of amylin amyloid fibrils. The theoretical and experimental 2DIR line widths suggest a "W" pattern, as a function of residue number. We show that large line widths result from substantial structural disorder and that this pattern is indicative of the stable secondary structure of the two β-sheet regions. This work provides a protocol for bridging MD simulation and 2DIR experiments for future aggregation studies.     

Interaction of sodium dodecyl sulfate with methacrylate-PEG comb copolymers

A series of sodium methacrylate and poly(ethylene glycol) (PEG) comb copolymers (MAA/PEG) with approximate PEG chain lengths of 7, 11, and 22 ethylene oxide units were synthesized by free radical polymerization. Their weight-average molecular mass was found to be approximately 66 000. A commercial sample of a PEG comb polymer with an acrylic backbone was also used in the studies (Sokalan HP 80). The interaction of the MAA/PEG comb polymers and pure sodium methacrylate (SPMA) with sodium dodecyl sulfate (SDS) was studied by ESR spectroscopy using 5-doxyl stearic acid (5-DSA) spin probe and by conductivity measurements. Surfactant aggregation in water occurred at SDS concentrations lower than the surfactant critical micelle concentration (cmc) and depended on the polymer concentration. The observations have been attributed to changes in the effective ionic strength of the systems due to the polymer itself, and it has been concluded that there is no interaction between the MAA/PEG comb copolymers or SPMA and SDS. This has been confirmed by the fact that the decrease in surfactant aggregation concentration is similar in magnitude to the decrease observed on adding NaCl when counterion ion condensation effects are taken into account. It is apparent that the electrostatic repulsions between the surfactant molecules and the methacrylate backbone of the MAA/PEG comb copolymers inhibit association of SDS with the PEG side chains.     

Design of an N-methylated peptide inhibitor of alpha-synuclein aggregation guided by solid-state NMR

Many neurodegenerative diseases are associated with the aggregation of misfolded proteins into amyloid oligomers or fibrils that are deposited as pathological lesions within areas of the brain. An attractive therapeutic strategy for preventing or ameliorating amyloid formation is to identify agents that inhibit the onset or propagation of protein aggregation. Here we demonstrate how solid-state nuclear magnetic resonance (ssNMR) may be used to identify key residues within amyloidogenic protein sequences that may be targeted to inhibit the aggregation of the host protein. For alpha-synuclein, the major protein component of Lewy bodies associated with Parkinson's disease, we have used a combination of ssNMR and biochemical data to identify the key region for self-aggregation of the protein as residues 77-82 (VAQKTV). We used our new structural information to design a peptide derived from residues 77 to 82 of alpha-synuclein with an N-methyl group at the C-terminal residue, which was able to disrupt the aggregation of alpha-synuclein. Thus, we have shown how structural data obtained from ssNMR can guide the design of modified peptides for use as amyloid inhibitors, as a primary step toward developing therapeutic compounds for prevention and/or treatment of amyloid diseases.     

POTENTIAL ERRORS IN THE USE OF CELLULOSE DIACETATE AND MYLAR FILTERS IN UV-B RADIATION STUDIES

Abstract— The increase in UV-B radiation(290–320 nm) penetrating to the earth's surface as a result of the chemical depletion of the stratospheric ozone layer is an important environmental concern. In most studies using artificial UV-B sources, the determination of enhanced UV-B radiation effects on plants relies on equivalent UV-A radiation(320–400 nm) from the experimental UV-B fluorescent lamp source, filtered with either cellulose diacetate (CA) to create UV-B treatments, or with type S Mylar or polyester (PE) to create controls (no UV-B). The spectral irradiance in the UV-A was measured in the dark below lamps at two daily UV-B irradiance levels (14.1 and 10.7 W m^-2) with CA and PE at two ages. Highly significant differences in UV-A radiation (P 0.01) were measured below the treatment/control pairs at both fluence rates and filter ages. Filter aging was observed, which reduced the UV-A irradiance, especially for PE. The total daily ambient UV-A irradiance was also determined in the glasshouse at three seasons: the fall equinox, summer and winter, from which the total daily UV-A (lamp + ambient) irradiances were calculated. The addition of low to moderate ambient irradiance removed the treatment/control differences in the longwave UV-A(350–400 nm); however, the treatment/contro1 differences remained in the shortwave UV-A(320–350 nm), which was restricted by the glass, and in the total UV-A. The treatment/control differences persisted in the shortwave UV-A for the higher irradiance level, even under high summer ambient light. Also, spectral ratios (UVB:UV-A and shortwave: longwave UV-A) for all treatment groups decreased as the ambient UV-A radiation increased. Therefore, a range of experimental conditions exist where PE-covered lamps do not provide adequate control for UV-A irradiance, relative to the CA treatment, for glasshouse/growth chamber experiments. Potential complications in the interpretation of plant response exist for UV-B experiments conducted under low ambient light conditions (e.g. growth chambers; glasshouse in winter) or high daily UV-B irradiances (e.g. 14 kJ m^-2) for those plant responses that are sensitive to UV-A radiation.     

Assessment of liver fat quantification in the presence of iron

This study assesses the stability of magnetic resonance liver fat measurements against changes in T2* due to the presence of iron, which is a confound for accurate quantification. The liver T2* was experimentally shortened by intravenous infusion of a super paramagnetic iron oxide contrast agent. Low flip angle multiecho gradient echo sequences were performed before, during and after infusion. The liver fat fraction (FF) was calculated in co-localized regions-of-interest using T2* models that assumed no decay, monoexponential decay and biexponential decay. Results show that, when T2* was neglected, there was a strong underestimation of FF and with monoexponential decay there was a weak overestimation of FF. Curve-fitting using the biexponential decay was found to be problematic. The overestimation of FF may be due to remaining deficiencies in the model, although is unlikely to be important for clinical diagnosis of steatosis.