Graphene Microelectrode Arrays to Combine Electrophysiology with Fluorescence Imaging of Amyloid Proteins

Alzheimer's disease (AD) and Parkinson's diseases (PD) are neurodegenerative diseases that affect $\sim$60\,million people worldwide. Both diseases are linked to the misfolding of proteins from their native conformational state into $\beta$-sheeted amyloid fibrils. In AD the implicated proteins are amyloid-$\beta$ and tau, and for PD the implicated protein is $\alpha$-synuclein (aSyn). The motivation for this work is to develop and use physical techniques to better understand the role of amyloid proteins in neurodegenerative diseases. Two techniques used in amyloid research are fluorescence microscopy, to map the protein location and aggregation state, and electrophysiology, to examine the effect of the proteins on neurons. To enable these techniques to be combined, a transparent graphene microelectrode array (MEA) was designed, fabricated and characterised. The active electrode site was graphene since it is electrically conductive, optically transparent and biocompatible. The graphene MEA was characterised using Raman spectroscopy to check the graphene quality, and electrochemical impedance spectroscopy (EIS) to probe the electrode-electrolyte interface. The graphene MEAs enabled voltage trace recordings from cultured neurons to be combined with widefield, confocal fluorescence and fluorescence lifetime imaging microscopy (FLIM). Combining fluorescence imaging and electrophysiology will allow amyloid aggregation to be correlated with neuronal firing patterns. Another physical technique used was Fourier transform infrared spectroscopy (FTIR). A script was written to estimate the protein secondary structure content, and used to investigate polymorphism in the monomeric amyloid protein aSyn.Engineering and Physical Sciences Research Council, Wellcome Trust, Medical Research Counci

Short hydrogen bonds enhance nonaromatic protein-related fluorescence.

Fluorescence in biological systems is usually associated with the presence of aromatic groups. Here, by employing a combined experimental and computational approach, we show that specific hydrogen bond networks can significantly affect fluorescence. In particular, we reveal that the single amino acid L-glutamine, by undergoing a chemical transformation leading to the formation of a short hydrogen bond, displays optical properties that are significantly enhanced compared with L-glutamine itself. Ab initio molecular dynamics simulations highlight that these short hydrogen bonds prevent the appearance of a conical intersection between the excited and the ground states and thereby significantly decrease nonradiative transition probabilities. Our findings open the door to the design of new photoactive materials with biophotonic applications

Short hydrogen bonds enhance nonaromatic protein-related fluorescence.

Fluorescence in biological systems is usually associated with the presence of aromatic groups. Here, by employing a combined experimental and computational approach, we show that specific hydrogen bond networks can significantly affect fluorescence. In particular, we reveal that the single amino acid L-glutamine, by undergoing a chemical transformation leading to the formation of a short hydrogen bond, displays optical properties that are significantly enhanced compared with L-glutamine itself. Ab initio molecular dynamics simulations highlight that these short hydrogen bonds prevent the appearance of a conical intersection between the excited and the ground states and thereby significantly decrease nonradiative transition probabilities. Our findings open the door to the design of new photoactive materials with biophotonic applications

Extent of N-terminus exposure of monomeric alpha-synuclein determines its aggregation propensity

Abstract: As an intrinsically disordered protein, monomeric alpha-synuclein (aSyn) occupies a large conformational space. Certain conformations lead to aggregation prone and non-aggregation prone intermediates, but identifying these within the dynamic ensemble of monomeric conformations is difficult. Herein, we used the biologically relevant calcium ion to investigate the conformation of monomeric aSyn in relation to its aggregation propensity. We observe that the more exposed the N-terminus and the beginning of the NAC region of aSyn are, the more aggregation prone monomeric aSyn conformations become. Solvent exposure of the N-terminus of aSyn occurs upon release of C-terminus interactions when calcium binds, but the level of exposure and aSyn’s aggregation propensity is sequence and post translational modification dependent. Identifying aggregation prone conformations of monomeric aSyn and the environmental conditions they form under will allow us to design new therapeutics targeted to the monomeric protein

Extent of N-terminus exposure of monomeric alpha-synuclein determines its aggregation propensity

Abstract: As an intrinsically disordered protein, monomeric alpha-synuclein (aSyn) occupies a large conformational space. Certain conformations lead to aggregation prone and non-aggregation prone intermediates, but identifying these within the dynamic ensemble of monomeric conformations is difficult. Herein, we used the biologically relevant calcium ion to investigate the conformation of monomeric aSyn in relation to its aggregation propensity. We observe that the more exposed the N-terminus and the beginning of the NAC region of aSyn are, the more aggregation prone monomeric aSyn conformations become. Solvent exposure of the N-terminus of aSyn occurs upon release of C-terminus interactions when calcium binds, but the level of exposure and aSyn’s aggregation propensity is sequence and post translational modification dependent. Identifying aggregation prone conformations of monomeric aSyn and the environmental conditions they form under will allow us to design new therapeutics targeted to the monomeric protein

Research data supporting 'Extent of N-terminus exposure of monomeric alpha-synuclein determines its aggregation propensity'

Raw data files supporting the manuscript 'Extent of N-terminus exposure of monomeric alpha-synuclein determines its aggregation propensity'. Including raw HDX-MS data for up to 6 replicates for two labelling conditions (with and without Ca2+) and MS/MS mapping files. Raw nano-ESI-EM and nano-ESI-IM-MS data of three replicates with and without Ca2+. Raw NMR data files for three aSyn varients with and without Ca2+. Raw ThT-based aggregation kinetic data. Additional AFM files. Primer sequences

Research data supporting 'Short hydrogen bonds enhance nonaromatic protein-related fluorescence'

Raw data for experimental figures. Files contain .cif (crystallographic information file) for XRD data of the L-pyro-amm structure. .xlsx file containing spectra for absorption of L-glutamine, L-pyroglutamine and L-pyro-amm. .xlsx file contains spectra for fluorescence excitation and emission collected over 8 days for L-glutamine conversion to L-pyro-amm