Publications

Abstract An in-situ approach based in multiple spectroscopic techniques and benchmarked with DSC was used to characterise beta-Lg thermally-induced transitions. The methodology applied overcomes previously reported limitations by ensuring similar experimental conditions in different determinations, non-aggregation conditions and allowing differentiation between fluorescent variations due to collisional quenching and structural modifications. These experimental improvements along with the correlation of complementary data from the assessment of several unfolding-related events, allowed a real time, precise and detailed description of the unfolding/refolding pathways of beta-Lg. The existence of a complex multi-step unfolding mechanism was confirmed, with a focus on the reversible conformational changes. The elusive unfolding intermediates were characterised in terms of structural swelling, hydrophobic sites accessibility and tryptophan exposure. This approach allowed establishing a clear order of events during thermally-induced structural changes, representing a step forward in the understanding of protein stability and interactions, useful, e.g., when establishing heat treatments of dairy products.

Abstract The effects of light-absorbing atmospheric particles on climate forcing have been integrated into climate models, but the absence of brown carbon (BrC) in these models has led to differences between model predictions and measured data. Herein, we have used density functional theory (DFT) to generate models for the atmospheric absorption of polycyclic aromatic hydrocarbons (PAHs), major contributors to BrC light absorption, found over Seoul (South Korea), considering their seasonal and yearly variation. Winter was found to be the most problematic season, with significant absorption from the PAHs, while the absorption was more moderate in the autumn and in the spring. In the summer, the absorption is relatively quite weak. This is in line with the higher concentration of PAHs during winter, followed by autumn and spring, while being lower during summer. Moreover, these models showed that PAHs absorb strongly in the UVA and UVB regions of the UV spectrum, followed by moderate absorption in the UVC region and weak absorption in the visible region. Nevertheless, only absorption at the UVA and the visible region should be relevant for climate forcing. Finally, fluoranthene and benzo[a]anthracene are the most relevant contributors for UVB absorption, while benzo[a]pyrene, benzo[g,h,i]perylene, indeno[1,2,3-cd]pyrene and benzo[k]fluoranthene are the main responsible for absorption in the visible region. Thus, our modelling approach allowed us to identify which should be the most relevant PAHs for climate forcing on this region of the globe.

Abstract Persistent infections, usually associated with biofilm-producing bacteria, are challenging for both medical and scientific communities. The potential interest in drug repurposing for biofilm control is growing due to both disinvestment in antibiotic R&D and reduced efficacy of the available panel of antibiotics. In the present study, the antibacterial and antibiofilm activities of four non-steroidal anti-inflammatory drugs (NSAIDs), piroxicam (PXC), diclofenac sodium (DCF), acetylsalicylic acid (ASA) and naproxen sodium (NPX) were evaluated againstEscherichia coliandStaphylococcus aureus. The minimum inhibitory/bactericidal concentrations (MICs and MBCs) and the dose-response curves from exposure to the selected NSAIDs were determined. MICs were found for PXC (800 mu g/mL) and ASA (1750 mu g/mL) againstE. coli, and for DCF (2000 mu g/mL) and ASA (2000 mu g/mL) againstS. aureus. No MBCs were found (>2000 mu g/mL). The potential of NSAIDs to eradicate preformed biofilms was characterized in terms of biofilm mass, metabolic activity and cell culturability. Additionally, the NSAIDs were tested in combination with kanamycin (KAN) and tetracycline (TET). ASA, DCF and PXC promoted significant reductions in metabolic activity and culturability. However, only PXC promoted biofilm mass removal. Additive interactions were obtained for most of the combinations between NSAIDs and KAN or TET. In general, NSAIDs appear to be a promising strategy to control biofilms as they demonstrated to be more effective than conventional antibiotics.

Abstract alpha-Synuclein (alpha syn) is a cytosolic intrinsically disordered protein (IDP) known to fold into an alpha-helical structure when binding to membrane lipids, decreasing protein aggregation. Model membrane enable elucidation of factors critically affecting protein folding/aggregation, mostly using either small unilamellar vesicles (SUVs) or nanodiscs surrounded by membrane scaffold proteins (MSPs). Yet SUVs are mechanically strained, while MSP nanodiscs are expensive. To test the impact of lipid particle size on alpha-syn structuring, while overcoming the limitations associated with the lipid particles used so far, we compared the effects of large unilamellar vesicles (LUVs) and lipid-bilayer nanodiscs encapsulated by diisobutylene/maleic acid copolymer (DIBMA) on alpha syn secondary-structure formation, using human-, elephant- and whale -alpha syn. Our results confirm that negatively charged lipids induce alpha syn folding in h-alpha syn and e-alpha syn but not in w-alpha syn. When a mixture of zwitterionic and negatively charged lipids was used, no increase in the secondary structure was detected at 45 degrees C. Further, our results show that DIBMA/lipid particles (DIBMALPs) are highly suitable nanoscale membrane mimics for studying alpha syn secondary-structure formation and aggregation, as folding was essentially independent of the lipid/protein ratio, in contrast with what we observed for LUVs having the same lipid compositions. This study reveals a new and promising application of polymer-encapsulated lipid-bilayer nanodiscs, due to their excellent efficiency in structuring disordered proteins such as alpha syn into nontoxic alpha-helical structures. This will contribute to the unravelling and modelling aspects concerning protein-lipid interactions and alpha-helix formation by alpha syn, paramount to the proposal of new methods to avoid protein aggregation and disease.

Abstract The selective fluorescence sensing of hypochlorite (ClO-) was achieved at pH 7.4 by a simple analytical procedure through the fluorescence quenching of autoclave synthesized carbon dots (CDs), which used as precursor an adduct formed between 3-aminophenylboronic acid (APBA) and alizarin red S (ARS). The use of this adduct allowed the preparation of CDs with a red shifted emission (560 nm) and excitation in the visible range (490 nm). Quantification of hypochlorite was achieved at physiological pH (pH 7.4) in aqueous solutions by fluorescence quenching with a linearity range of 0-200 mu M (limit of detection of 4.47 mu M, and limit of quantification of 13.41 mu M). The selectivity of hypochlorite sensing was confirmed by comparison with other potential analytes, such as glucose, fructose and hydrogen peroxide. Finally, the validity of the proposed assay was further demonstrated by performing recovery assays in different matrices. Thus, this CDs allows the fluorescent sensing of ClO- with spectral properties more suitable for in vitro/in viva applications.

Abstract The search of new antibiotics, particularly with new mechanisms of action, is nowadays a very important public health issue, due to the worldwide increase of resistant pathogens. Within this effort, much research has been done on antimicrobial peptides, because having the membrane as a target, they represent a new antibiotic paradigm. Among these, cyclic peptides (CPs) made of sequences of D- and L-amino acids have emerged as a new class of potential antimicrobial peptides, due to their expected higher resistance to protease degradation. These CPs are planar structures that can form Self-assembled Cyclic Peptide Nanotubes (SCPNs), in particular in the presence of lipid membranes. Aiming at understanding their mechanism of action, we used biophysical experimental techniques (DSC and ATR-FTIR) together with Coarse-grained molecular dynamics (CG-MD) simulations, to characterize the interaction of these CPs with model membranes of different electrostatic charges' contents. DSC results revealed that the CPs show a strong interaction with negatively charged membranes, with differences in the strength of interactions depending on peptide and on membrane charge content, at odds with no or mild interactions with zwitterionic membranes. ATR-FTIR suggested that the peptides self-assemble at the membrane surface, adopting mainly a beta-structure. The experiments with polarized light showed that in most cases they lie parallel to the membrane surface, but other forms and orientations are also apparent, depending on peptide structure and lipid:peptide ratio. The nanotube formation and orientation, as well as the dependence on membrane charge were also confirmed by the CG-MD simulations. These provide detail on the position and interactions, in agreement with the experimental results. Based on the findings reported here, we could proceed to the design and synthesis of a second-generation CPs, based on CP2 (soluble peptide), with increased activity and reduced toxicity.

Abstract While TiO2 nanoparticles have shown potential as photocatalysts in the degradation of organic contaminants, their inability to absorb efficiently visible light has limited their industrial application. One strategy for solving this problem is monodoping TiO2 photocatalysts with transition metals, which has worked in the degradation of several pollutants. However, it is not clear if this improvement is enough to offset the potential environmental impacts of adding metal ions to the synthesis of TiO2. Herein, we have used Life Cycle Assessment (LCA) to determine the sustainability of monodoping TiO2 with transition metals (Fe, Co, Mn and Ni, with a 1% weight ratio) to enhance the photocatalytic properties of the photocatalyst toward the degradation of Carbamazepine and Methyl Orange, under UV-A and visible light irradiation. We found that the addition of transition-metals has no significant effect on the environmental impacts associated with the synthesis of TiO2, when a weight-based functional unit was considered. However, when photocatalytic activity was considered, major differences were found. Thus, our results demonstrate that the sustainability of monodoping with different transition metals is solely determined by their ability to enhance (or not) the photocatalytic activity of TiO2. Our data also demonstrated that isopropyl alcohol constitutes a critical point in the synthesis of TiO2 photocatalysts, with ethanol being a potential substitute.

Abstract Carbon dots (CDs) are carbon-based nanoparticles with remarkable luminescent properties, which have made them exciting and suitable alternatives to more traditional fluorophores and even to more recent luminescent nanomaterials (such as metal-based quantum dots). However, despite this high interest on CDs, there has been no focus on their sustainable development and fabrication, and so, there is lacking concrete data on their environmental impacts. A life cycle assessment (LCA) approach was used here to compare and understand the environmental impacts of carbon dots (CDs) obtained via six representative bottom-up synthetic strategies (cradle-to-gate). These routes consist on hydrothermal and microwave-assisted synthesis of CDs derived of citric acid (with the occasional addition of urea), which represent current trends in the synthesis of CDs. Results show that for hydrothermal synthesis the use of electricity is dominant for almost all environmental categories, while citric acid produces most impacts for microwave-assisted synthesis. A performance-based comparison was also made by rescaling results with the fluorescence quantum yield of the CDs. This approach changed the rank order of preference in all categories by a significant margin. While previous analysis indicated microwave-assisted synthesis of citric acid-derived CDs to be the most benign in environmental terms, now the option is the synthesis (either by hydrothermal or microwave-assisted treatment) of urea and citric acid-derived CDs.

Abstract This paper proposes for the first time: (a) a qualitative analytical method based on portable and benchtop backscattering Raman spectrometers coupled to hierarchical cluster analysis (HCA) and multivariate curve resolution - alternating least-squares (MCR-ALS) to identify two polymorphs of antimalarial quinine sulfate in commercial pharmaceutical tablets in their intact forms and (b) a quantitative analytical method based on gold nanoparticles (AuNPs) as active substrates for surface-enhanced Raman scattering (SERS) in combination with MCR-ALS to quantify quinine sulfate in commercial pharmaceutical tablets in solution. The pure concentration and spectral profiles recovered by MCR-ALS proved that both formulations present different polymorphs. These results were also confirmed by two clusters observed in the HCA model, according to their similarities within and among the samples that provided useful information about the homogeneity of different pharmaceutical manufacturing processes. AuNPs-SERS coupled to MCR-ALS was able to quantify quinine sulfate in the calibration range from 150.00 to 200.00 ng mL(-1) even with the strong overlapping spectral profile of the background SERS signal, proving that it is a powerful ultrahigh sensitivity analytical method. This reduced linearity was validated throughout a large calibration range from 25.00 to 175.00 mu g mL(-1) used in a reference analytical method based on high performance liquid chromatography with a diode array detector (HPLC-DAD) coupled to MCR-ALS for analytical validation purposes, even in the presence of a coeluted compound. The analytical methods developed herein are fast, because second-order chromatographic data and first-order SERS spectroscopic data were obtained in less than 6 and 2 min, respectively. Concentrations of quinine sulfate were estimated with low root mean square error of prediction (RMSEP) values and a low relative error of prediction (REP%) in the range 1.8-4.5%.