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2013
Jorne, F, Henriques FMA.  2013.  Study of hydraulic lime grout injections in different porous media: an experimental study, 25th - 27th June. Proceedings of the 13th International Conference on Studies, Repairs and Maintenance of Heritage Architecture. , New Forest, UK
Oliveira, J, da Silva MA, Jorge Parola A, Mateus N, Bras NF, Ramos MJ, de Freitas V.  2013.  Structural characterization of a A-type linked trimeric anthocyanin derived pigment occurring in a young Port wine, 2013. Food Chemistry. 141:1987-1996. Abstract
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Calogero, G, Sinopoli A, Citro I, Di Marco G, Petrov V, Diniz AM, Parola AJ, Pina F.  2013.  Synthetic analogues of anthocyanins as sensitizers for dye-sensitized solar cells, 2013. Photochemical & Photobiological Sciences. 12:883-894. AbstractWebsite

Seven flavylium salt dyes were employed for the first time as sensitizers for dye-sensitized solar cells (DSSCs). The theoretical and experimental wavelengths of the maximum absorbances, the HOMO and LUMO energy levels, the coefficients, the oscillator strengths and the dipole moments are calculated for these synthetic dyes. The introduction of a donor group in the flavylium molecular structure was investigated. Photophysical and photoelectrochemical measurements showed that some of these synthetic analogues of anthocyanins are very promising for DSSC applications. The best performance was obtained by a DSSC based on the novel compound 7-(N,N-diethylamino)-3',4'-dihydroxyflavylium which produced a 2.15% solar energy-to-electricity conversion efficiency, under AM 1.5 irradiation (100 mW cm(-2)) with a short-circuit current density (J(sc)) of 12.0 mA cm(-2), a fill factor of 0.5 and an open-circuit voltage (V-oc) of 0.355 V; its incident photocurrent efficiency of 51% at the peak of the visible absorption band of the dye is remarkable. Our results demonstrated that the substitution of a hydroxylic group with a diethylamine unit in position 7 of ring A of the flavylium backbone expanded the pi-conjugation in the dye and thus resulted in a higher absorption in the visible region and is advantageous for effective electron injection from the dye into the conduction band of TiO2.

Amado, M, Rodrigues P, Poggi F, Freitas J.  2013.  Solar Urban Planning to EU 20-20-20 Targets. Portugal SB 13 - CONTRIBUTION OF SUSTAINABLE BUILDING TO MEET EU 20-20-20 TARGETS. :697-708., Guimaraes, PT: iiSBE PORTUGAL
Dudognon, E, Correia NT, Danède F, Descamps M.  2013.  Solid-Solid Transformation in Racemic Ibuprofen. Pharmaceutical Research. 30(1):81-89.
Dantas, JM, Morgado L, Pokkuluri PR, Turner DL, Salgueiro CA.  2013.  Solution structure of a mutant of the triheme cytochrome PpcA from Geobacter sulfurreducens sheds light on the role of the conserved aromatic residue F15. Biochimica et Biophysica Acta (BBA) - Bioenergetics. 1827(4):484-492. AbstractWebsite

Extracellular electron transfer is one of the physiological hallmarks of Geobacteraceae. Most of the Geobacter species encode for more than 100 c-type cytochromes which are, in general, poorly conserved between individual species. An exception to this is the PpcA family of periplasmic triheme c-type cytochromes, which are the most abundant proteins in these bacteria. The functional characterization of PpcA showed that it has the necessary properties to couple electron/proton transfer, a fundamental step for ATP synthesis. The detailed thermodynamic characterization of a PpcA mutant, in which the strictly conserved residue phenylalanine 15 was replaced by leucine, showed that the global redox network of cooperativities among heme groups is altered, preventing the mutant from performing a concerted electron/proton transfer. In this work, we determined the solution structure of PpcA F15L mutant in the fully reduced state using NMR spectroscopy by producing 15N-labeled protein. In addition, pH-dependent conformational changes were mapped onto the structure. The mutant structure obtained is well defined, with an average pairwise root-mean-square deviation of 0.36 Å for the backbone atoms and 1.14 Å for all heavy atoms. Comparison between the mutant and wild-type structures elucidated the contribution of phenylalanine 15 in the modulation of the functional properties of PpcA.

Borlido, L, Moura L, Azevedo AM, Roque ACA, Aires‐Barros MR, Farinha JPS.  2013.  Stimuli‐Responsive magnetic nanoparticles for monoclonal antibody purification. Biotechnology Journal. 8(6):709–717. AbstractWebsite

Monoclonal antibodies (mAbs) are important therapeutic proteins. One of the challenges facing large-scale production of monoclonal antibodies is the capacity bottleneck in downstream processing, which can be circumvented by using magnetic stimuli-responsive polymer nanoparticles. In this work, stimuli-responsive magnetic particles composed of a magnetic poly(methyl methacrylate) core with a poly(N-isopropylacrylamide-co-acrylic acid) (P(NIPAM-co-AA)) shell cross-linked with N, N'-methylenebisacrylamide were prepared by miniemulsion polymerization. The particles were shown to have an average hydrodynamic diameter of 317 nm at 18°C, which decreased to 277 nm at 41°C due to the collapse of the thermo-responsive shell. The particles were superparamagnetic in behavior and exhibited a saturation magnetization of 12.6 emu/g. Subsequently, we evaluated the potential of these negatively charged stimuli-responsive magnetic particles in the purification of a monoclonal antibody from a diafiltered CHO cell culture supernatant by cation exchange. The adsorption of antibodies onto P(NIPAM-co-AA)-coated nanoparticles was highly selective and allowed for the recovery of approximately 94% of the mAb. Different elution strategies were employed providing highly pure mAb fractions with host cell protein (HCP) removal greater than 98%. By exploring the stimuli-responsive properties of the particles, shorter magnetic separation times were possible without significant differences in product yield and purity.

Ferreira, I, Baptista AC, Leitão JP, Soares J, Fortunato E, Martins R, Borges JP.  2013.  Strongly Photosensitive and Fluorescent F8T2 Electrospun Fibers. Macromol Mater Eng. 298(2):174-180., Number 2 AbstractWebsite

Electrospun fibers of poly[(9,9-dioctylfluorenyl-2,7-diyl)-co-bithiophene] (F8T2) with exceptional electro-optical performance are obtained. The I/T characteristics measured in fibers with 7–15 µm diameter and 1 mm length show a semiconductor behavior; their thermal activation energy is 0.5 eV and the dark conductivity at RT is 5 × 10−9 (Ω cm)−1. Besides exhibiting a photosensitivity of about 60 under white light illumination with a light power intensity of 25 mW · cm−2, the fibers also attain RT photoluminescence in the cyan, yellow, and red wavelength range under ultraviolet, blue, and green light excitation, respectively. Optical microscope images of F8T2 reveal homogeneous electrospun fibers, which are in good agreement with the uniformly radial fluorescence observed.

Alves, C, Rodrigues, L. C., Andrade, J. R., Pawlicka, A., Pereira, Martins, Fortunato, Silva MM.  2013.  Study and Characterization of a Novel Polymer Electrolyte Based on Agar Doped with Magnesium Triflate. Molecular Crystals and Liquid Crystals. 570(1):1-11.
Cerqueira, N, Fernandes P, González P, Moura JJG, Ramos MJ.  2013.  The sulfur-shift: an activation mechanism for periplasmic nitrate reductase and formate dehydrogenase. Inorg Chem. 52:10766-10772.
Almeida, RA, Turano P, Moura I, Moura JJG, Pauleta SR.  2013.  Superoxide reductase: different interaction modes with its two redox partners. ChemBioChem. 14:1858–1866.
Amado, M, Lucas V, Ribeiro M.  2013.  Sustainable Construction: Value of Certification. Proc. of the Intl. Conf. on Advances in Civil, Structural and Environmental Engineering-- ACSEE 2013. :180-187., Zurich, CH: Institute of Research Engineers and Doctors
Amado, Miguel P., Barroso L.  2013.  SUSTAINABLE CONSTRUCTION: WATER USE IN RESIDENTIAL BUILDINGS IN PORTUGAL. International Journal of Sustainable Construction Engineering & Technology. Vol 4(No 2):14-22.
Geraldes, I, Amado MP.  2013.  SUSTENTABILIDADE DA CONSTRUÇÃO DE HABITAÇÃO SOCIAL COM RECURSO A LSF Sustainability of Construction of Social Habitation with LSF. 2º Congresso Internacional da habitação no Espaço Lusófono. :145-146., Lisboa, PT: LNEC
Sousa, AMM, Borges J, Silva F, Ramos AM, Cabrita EJ, c}alves MPG{\c.  2013.  Shaping the molecular assemblies of native and alkali- modified agars in dilute and concentrated aqueous media via microwave-assisted extraction. Soft Matter. 9:3131-3139. AbstractWebsite

The use of agar-based biomaterials for the development of emerging areas, such as tissue engineering or ‘smart materials’ production has recently gained great interest. Understanding how these gel-forming polysaccharides self-organise in aqueous media and how these associations can be tuned to meet the specific needs of each application is thus of great relevance. As an extension of previous pioneering research concerning the application of the microwave-assisted extraction (MAE) technique in the recovery of native (NA) and alkali-modified (AA) agars, this article focuses on the different molecular assemblies assumed by these novel NA and AA when using different MAE routes. The molecular architectures in dilute (5, 10, 50 and 100 mg mL1) and concentrated (1.5% (w/w)) aqueous media were imaged by AFM and cryoSEM, respectively. Relevant structural and physicochemical properties were investigated to support the microscopic data. Different extraction routes led to polysaccharides with unique properties, which in turn resulted in different molecular assemblies. Even at 5 mg mL1, AFM images included individual fibers, cyclic segments, aggregates and local networks. At higher polymer concentrations, the structures further aggregated forming multilayer polymeric networks for AA. The more compact and denser 3D networks of AA, imaged by cryoSEM, and their higher resistance to large deformations matched the 2D-shapes observed by AFM. Depending on the nature of the AA chains, homogeneous or heterogeneous growth of assemblies was seen during network formation. The obtained results support well the view of double helix formation followed by intensive double helix association proposed for agar gelation.

Viegas, A, Sardinha J, Freire F, Duarte DF, Carvalho AL, Fontes CMGA, Romao MJ, Macedo AL, Cabrita EJ.  2013.  Solution structure, dynamics and binding studies of a family 11 carbohydrate-binding module from Clostridium thermocellum (CtCBM11). Biochemical Journal. 451:289-300. AbstractWebsite
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Viegas, A, Sardinha J, Duarte DF, Carvalho AL, Fontes CMGA, Romao MJ, Macedo AL, Cabrita EJ.  2013.  Solution Structure, Dynamics and Binding Studies of a Family 11 Carbohydrate-Binding Module from Clostridium thermocellum (CtCBM11). Biochemical Journal. 451:289-300. AbstractWebsite

Non-catalytic cellulosomal carbohydrate-binding modules (CBMs) are responsible for increasing the catalytic efficiency of cellulosic enzymes by selectively putting the substrate (a wide range of poly- and oligosaccharides) and enzyme into close contact. In the present work we carried out an atomistic rationalization of the molecular determinants of ligand specificity of a family 11 CBM from thermophilic C. thermocellum (CtCBM11), based on a NMR and molecular modeling approach. We have determined the NMR solution structure of CtCBM11 at 25 and 50 ºC and derived information on the residues of the protein involved in ligand recognition and on the influence of the length of the saccharide chain on binding. We obtained models of the CtCBM11/cellohexaose and CtCBM11/cellotetraose complexes by docking in accordance with the NMR experimental data. Specific ligand/protein CH-π and Van der Waals interactions were found to be determinant for the stability of the complexes and for defining specificity. Using the order parameters derived from backbone dynamics analysis in the presence and absence of ligand and at 25 and 50 ºC, we determined that the protein’s backbone conformational entropy is slightly positive. This data in combination with the negative binding entropy calculated from ITC studies supports a selection mechanism where a rigid protein selects a defined oligosaccharide conformation.

Corvo, M, Sardinha J, Menezes SC, Einloft S, Seferin M, Dupont J, Casimiro T, Cabrita EJ.  2013.  Solvation of carbon dioxide in [C4 mim][BF(4)] and [C(4) mim][PF(6)] ionic liquids revealed by high-pressure NMR spectroscopy. Angew Chem Int Ed Engl. 52:13024-7., Number 49 AbstractWebsite

Where is CO2 ? The intermolecular interactions of [C4 mim]BF4 and [C4 mim]PF6 ionic liquids and CO2 have been determined by high-pressure NMR spectroscopy in combination with molecular dynamic simulations. The anion and the cation are both engaged in interactions with CO2 . A detailed picture of CO2 solvation in these ILs is provided. CO2 solubility is essentially determined by the microscopic structure of the IL.

Corvo, MC, Sardinha J, Menezes SC, Einloft S, Seferin M, Dupont J, Casimiro T, Cabrita EJ.  2013.  Solvation of Carbon Dioxide in [C4mim][BF4] and [C4mim][PF6] Ionic Liquids Revealed by High-Pressure NMR Spectroscopy. Angewandte Chemie International Edition. 52:13024–13027., Number 49: WILEY-VCH Verlag Abstract
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Corvo, MC, Sardinha J, Menezes SC, Einloft S, Seferin M, Dupont J, Casimiro T, Cabrita EJ.  2013.  Solvation of CO2 in [C4mim][BF4] and [C4mim][PF6] ionic liquids revealed by High Pressure NMR. Angewandte Chemie International Edition. 49:13024-13027. AbstractWebsite
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Palma, AS, Pinheiro B, Liu Y, Takeda Y, Chai W, Ito Y, Romao MJ, Carvalho AL, Feizi T.  2013.  The Structural Basis of the Recognition of Di-glucosylated N-glycans by the ER Lectin Malectin. Glycobiology. 23:1368-1369., Number 11 AbstractWebsite
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Couto, RM, Lourenco C, Lima JC, Simoes PC, Branco LC.  2013.  Studies of the Influence in Acetonitrile Polarity Using Imidazolium Ionic Liquids as Additives. Journal of Chemical and Engineering Data. 58:1449-1453., Number 6 Abstract
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Pinheiro, BA, Carvalho AL, Romao MJ, Fontes CM.  2013.  Study of the cohesin-dockerin interaction and its role in the C. thermocellum cellulosome assembly. European Biophysics Journal with Biophysics Letters. 42:S180-S180. AbstractWebsite
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Giannicchi, I, Brissos R, Ramos D, de Lapuente J, Lima JC, Dalla Cort A, Rodriguez L.  2013.  Substituent Effects on the Biological Properties of Zn-Salophen Complexes. Inorganic Chemistry. 52:9245-9253., Number 16 Abstract
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Gago, S, Cabrita L, Carlos Lima J, Branco LC, Pina F.  2013.  Synthesis and characterization of luminescent room temperature ionic liquids based on Ru(bpy)(CN)(4)(2-). Dalton Transactions. 42:6213-6218., Number 17 Abstract
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