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2016
Carepo, MS, Carreira C, Grazina R, Zakrzewska ME, Dolla A, Aubert C, Pauleta SR, Moura JJG, Moura I.  2016.  Orange protein from Desulfovibrio alaskensis G20: insights into the Mo-Cu cluster protein-assisted synthesis. J Biol Inorg Chem. 21:53-62.
Almeida, RM, Dell'Acqua S, Krippahl L, Moura JJG, Pauleta SR.  2016.  Predicting Protein-Protein Interactions Using BiGGER: Case Studies. Molecules. 21:1037.Website
Craveiro, R, Aroso I, Flammia V, Carvalho T, Viciosa MT, Dionísio M, Barreiros S, Reis RL, Duarte ARC, Paiva A.  2016.  Properties and thermal behavior of natural deep eutectic solvents. Journal of Molecular Liquids. 215:534-540.Website
Yang, Y, Wikieł AJ, Dall'agnol LT, Eloy P, Genet MJ, Moura JJG, Sand W, Dupont-Gillain CC, Rouxhet PG.  2016.  Proteins dominate in the surface layers formed on materials exposed to extracellular polymeric substances from bacterial cultures. Biofouling. 32:95-108.
Pina, AS, Carvalho S, Dias AMGC, Guilherme M, Pereira AS, Caraça LT, Coroadinha AS, Lowe CR, Roque ACA.  2016.  Tryptophan tags and de novo designed complementary affinity ligands for the expression and purification of recombinant proteins. Journal of Chromatography A. 1472:55–65. AbstractWebsite

A common strategy for the production and purification of recombinant proteins is to fuse a tag to the protein terminal residues and employ a “tag-specific” ligand for fusion protein capture and purification. In this work, we explored the effect of two tryptophan-based tags, NWNWNW and WFWFWF, on the expression and purification of Green Fluorescence Protein (GFP) used as a model fusion protein. The titers obtained with the expression of these fusion proteins in soluble form were 0.11 mg ml−1 and 0.48 mg ml−1 for WFWFWF and NWNWNW, respectively. A combinatorial library comprising 64 ligands based on the Ugi reaction was prepared and screened for binding GFP-tagged and non-tagged proteins. Complementary ligands A2C2 and A3C1 were selected for the effective capture of NWNWNW and WFWFWF tagged proteins, respectively, in soluble forms. These affinity pairs displayed 106 M−1 affinity constants and Qmax values of 19.11 ± 2.60 ug g−1 and 79.39 ug g−1 for the systems WFWFWF AND NWNWNW, respectively. GFP fused to the WFWFWF affinity tag was also produced as inclusion bodies, and a refolding-on column strategy was explored using the ligand A4C8, selected from the combinatorial library of ligands but in presence of denaturant agents.

Bianchi, C, Loureiro J, Duarte P, Marques J, Figueira J, Ropio I, Ferreira I.  2016.  V2O5 Thin Films for Flexible and High Sensitivity Transparent Temperature Sensor. Advanced Materials Technologies. 1(6):1600077. AbstractWebsite

This work reports the optimization of V2O5 Seebeck coefficient to obtain high sensitivity and transparent temperature sensors. It is observed that the film thickness plays a major role on the thermoelectric properties, together with the annealing step, obtaining a Seebeck coefficient of −690 μV K−1, for 75 nm thick V2O5 films deposited on glass, after an annealing step of 1 h at 773 K, in air. The V2O5 films are also deposited and optimized on polyimide substrates, but lower annealing temperature is required, 573 K for 3 h, to maintain the flexibility of the substrate and simultaneously high Seebeck coefficient, −591 μV K−1. These films are used in a simple design sensor and tested on the surface of a microfluidic channel (500 μm) made of polydimethylsiloxane, while having hot water flowing through it. The response time is below 1 s and the recovery time around 5 s.

Cruz, MV, Freitas F, Paiva A, Mano F, Dionísio M, Ramos AM, Reis MA.  2016.  Valorization of fatty acids-containing wastes and byproducts into short- and medium-chain length polyhydroxyalkanoates. New Biotechnology. 33(1):206-215.Website
Bianchi, C, Ferreira LM, Loureiro J, Rodrigues A, Duarte P, Baptista AC, Ferreira IM.  2016.  Vanadium Pentoxide Alloyed with Graphite for Thin-Film Thermal Sensors. J. Electron. Mater.. 45(3):1987–1991. AbstractWebsite

The thermoelectric (TE) properties of vanadium pentoxide (V2O5) alloyed with graphite (G) were studied as a function of its incorporation percentage. Variable weight percentages of graphite powder (0–50%) were added to V2O5 powder and their mixtures were evaporated by a thermal evaporation technique to form thin films with a thickness in the range of 30–80 nm. In the infrared wavelength region, the transmittance of the obtained films increased as the G percentage was increased, while in the visible range, it decreased with G up to 10%. The TE properties were improved when G was in the range of 10–30%, while it decreased for the other percentages: Seebeck coefficient (S) changed from 0.6 mV/K to 0.9 mV/K and was zero with a G of 50%; the electrical conductivity varied slightly from 5 (Ωm)−1 to 0.7 (Ωm)−1 while the mobility improved from 0.07 cm2/V s to 1.5 cm2/V s and the respective carrier concentration was reduced, from 1 × 1018 cm−3 to 4 × 1016 cm−3. These films were applied as temperature sensors evaluating the thermovoltage as a function of thermal gradient between two electrodes, in which one was maintained at room temperature.

Cordeiro, T, Santos AFM, Nunes G, Cunha G, Sotomayor JC, Fonseca IM, Florence Danède, Dias CJ, Cardoso MM, Correia NT, Viciosa TM, Dionísio M.  2016.  Accessing the Physical State and Molecular Mobility of Naproxen Confined to Nanoporous Silica Matrixes. The Journal of Physical Chemistry C. 120:14390-14401., Number 26 AbstractWebsite

The pharmaceutical drug naproxen was loaded in three different silica hosts with pore diameters of 2.4 (MCM), 3.2 (MCM), and 5.9 nm (SBA), respectively: napMCM\_2.4 nm, napMCM\_3.2 nm, and napSBA\_5.9 nm. To access the guest physical state in the prepared composites, differential scanning calorimetry (DSC), X-ray diffraction (XRD), and attenuated total reflectance Fourier transform infrared spectroscopy were used. The different techniques provided complementary information on a molecular population that was revealed to be distributed among different environments, namely the pore core, the inner pore wall, and the outer surface. It was found that naproxen is semicrystalline in the higher pore size matrix being able to crystallize inside pores; after melting it undergoes full amorphization. In the case of the lower pore size matrix, naproxen crystallizes outside pores due to an excess of filling while most of the remaining fraction is incorporated inside the pores as amorphous. Crystallinity in these two composites was observed by the emergence of the Bragg peaks in the XRD analysis, whereas for napMCM\_3.2 nm only the amorphous halo was detected. The latter only exhibits the step due to the glass transition by DSC remaining stable as amorphous at least for 12 months. The glass transition in the three composites is abnormally broad, shifting to higher temperatures as the pore size decreases, coherent with the slowing down of molecular mobility as probed by dielectric relaxation spectroscopy. For napSBA\_5.9 nm the dielectric response was deconvoluted in two processes: a hindered surface (S-) process due to molecules interacting with the inner pore wall and a faster α-relaxation associated with the dynamic glass transition due to molecules relaxing in the pore core, which seems a manifestation of true confinement effects. The drug incorporation inside a nanoporous matrix, mainly in 3.2 nm pores, was revealed to be a suitable strategy to stabilize the highly crystallizable drug naproxen in the amorphous/supercooled state and to control its release from the silica matrix, allowing full delivery after 90 min in basic media.

Dias, AMGC, dos Santos R, Iranzo O, Roque ACA.  2016.  Affinity adsorbents for proline-rich peptide sequences: a new role for WW domains. RSC Adv.. 6:68979-68988.: The Royal Society of Chemistry AbstractWebsite

The WW domain derived from human Yes-associated protein (hYAP65_WW) recognizes proline-rich peptides. The structural and chemical robustness of WW domains makes them appealing candidates to target and capture these peptides in affinity purification processes. In this work{,} the chemical synthesis of the hYAP65_WW domain containing a terminal cysteine for oriented coupling onto the chromatographic matrix was successfully achieved by a fragment solution condensation reaction and by incorporation of pseudoproline dipeptide units. Both strategies yielded a hYAP65_WW protein with the characteristic WW domain folding. The purified hYAP65_WW domain was immobilized in a chromatographic matrix and tested for binding to a proline-rich peptide. The adsorbent bound 92 ng of peptide per mg of support and the elution was particularly efficient when employing a low pH or an increase in salt concentration. This work sets the ground for the application of WW domains as affinity reagents towards the capture and elution of peptides and proteins rich in proline sequences.

Martins, M, Baptista PV, Mendo {AS}, Correia C, Videira P, Rodrigues AS, Muthukumaran J, Santos-Silva T, Silva A, {Guedes da Silva} F{MC }, Gigante J, Duarte A, Gajewska M, Fernandes AR.  2016.  In vitro and in vivo biological characterization of the anti-proliferative potential of a cyclic trinuclear organotin(IV) complex. Molecular Biosystems. 12:1015–1023., Number 3: ROYAL SOC CHEMISTRY Abstract

Identification of novel molecules that can selectively inhibit the growth of tumor cells, avoid causing side effects to patients and/or intrinsic or acquired resistance, usually associated with common chemotherapeutic agents, is of utmost importance. Organometallic compounds have gained importance in oncologic chemotherapy, such as organotin(IV) complexes. In this study, we assessed the anti-tumor activity of the cyclic trinuclear organotin(IV) complex with an aromatic oximehydroxamic acid group [nBu(2)Sn(L)](3)(H2L = N,2-dihydroxy-5-[N-hydroxyethanimidoyl]benzamide) - MG85 - and provided further characterization of its biological targets. We have previously shown the high anti-proliferative activity of this complex against human colorectal and hepatocellular carcinoma cell lines and lower cytotoxicity in neonatal non-tumor fibroblasts. MG85 induces tumor cell apoptosis and down-regulation of proteins related to tubulin dynamics (TCTP and COF1). Further characterization included the: (i) evaluation of interference in the cell cycle progression, including the expression of critical genes; (ii) affinity to DNA and the corresponding mode of binding; (iii) genotoxic potential in cells with deficient DNA repair pathways; and (iv) in vivo tumor reduction efficiency using mouse colorectal carcinoma xenografts.

Dantas, JM, Simões T, Morgado L, Caciones C, Fernandes AP, Silva MA, Bruix M, Pokkuluri RP, Salgueiro CA.  2016.  Unveiling the Structural Basis That Regulates the Energy Transduction Properties within a Family of Triheme Cytochromes from Geobacter sulfurreducens. The Journal of Physical Chemistry B. 120:10221-10233., Number 39 AbstractWebsite

A family of triheme cytochromes from Geobacter sulfurreducens plays an important role in extracellular electron transfer. In addition to their role in electron transfer pathways, two members of this family (PpcA and PpcD) were also found to be able to couple e–/H+ transfer through the redox Bohr effect observed in the physiological pH range, a feature not observed for cytochromes PpcB and PpcE. In attempting to understand the molecular control of the redox Bohr effect in this family of cytochromes, which is highly homologous both in amino acid sequence and structures, it was observed that residue 6 is a conserved leucine in PpcA and PpcD, whereas in the other two characterized members (PpcB and PpcE) the equivalent residue is a phenylalanine. To determine the role of this residue located close to the redox Bohr center, we replaced Leu6 in PpcA with Phe and determined the redox properties of the mutant, as well as its solution structure in the fully reduced state. In contrast with the native form, the mutant PpcAL6F is not able to couple the e–/H+ pathway. We carried out the reverse mutation in PpcB and PpcE (i.e., replacing Phe6 in these two proteins by leucine) and the mutated proteins showed an increased redox Bohr effect. The results clearly establish the role of residue 6 in the control of the redox Bohr effect in this family of cytochromes, a feature that could enable the rational design of G. sulfurreducens strains that carry mutant cytochromes with an optimal redox Bohr effect that would be suitable for various biotechnological applications.

Deuermeier, J, Bayer TJM, Yanagi H, Kiazadeh A, Martins R, Klein A, Fortunato E.  2016.  {Substrate reactivity as the origin of Fermi level pinning at the Cu2O/ALD-Al2O3 interface}. MATERIALS RESEARCH EXPRESS. 3, Number 4 Abstract
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2015
Corvo, MC, Sardinha J, Casimiro T, Marin G, Seferin M, Einloft S, Menezes SC, Dupont J, Cabrita EJ.  2015.  {A Rational Approach to CO2 Capture by Imidazolium Ionic Liquids: Tuning CO2 Solubility by Cation Alkyl Branching}, {JUN 8}. ChemSusChem. 8:1935-1946., Number {11} Abstract

Branching at the alkyl side chain of the imidazolium cation in ionic liquids (ILs) was evaluated towards its effect on carbon dioxide (CO2) solubilization at 10 and 80bar (1bar=1x10(5)Pa). By combining high-pressure NMR spectroscopy measurements with molecular dynamics simulations, a full description of the molecular interactions that take place in the IL-CO2 mixtures can be obtained. The introduction of a methyl group has a significant effect on CO2 solubility in comparison with linear or fluorinated analogues. The differences in CO2 solubility arise from differences in liquid organization caused by structural changes in the cation. ILs with branched cations have similar short-range cation-anion orientations as those in ILs with linear side chains, but present differences in the long-range order. The introduction of CO2 does not cause perturbations in the former and benefits from the differences in the latter. Branching at the cation results in sponge-like ILs with enhanced capabilities for CO2 capture.

Mendo, {AS}, Figueiredo S, Roma-Rodrigues C, Videira {PA }, Ma Z, Diniz M, Larguinho M, Costa PM, Lima {JC }, Pombeiro {AJL }, Baptista {PV}, Fernandes {AR}.  2015.  Characterization of antiproliferative potential and biological targets of a copper compound containing 4'-phenyl terpyridine, sep. JBIC Journal of Biological Inorganic Chemistry. 20:935–948., Number 6: Springer Abstract

Several copper complexes have been assessed as anti-tumor agents against cancer cells. In this work, a copper compound [Cu(H2O){OS(CH3)(2)}L](NO3)(2) incorporating the ligand 4'-phenyl-terpyridine antiproliferative activity against human colorectal, hepatocellular carcinomas and breast adenocarcinoma cell lines was determined, demonstrating high cytotoxicity. The compound is able to induce apoptosis and a slight delay in cancer cell cycle progression, probably by its interaction with DNA and induction of double-strand pDNA cleavage, which is enhanced by oxidative mechanisms. Moreover, proteomic studies indicate that the compound induces alterations in proteins involved in cytoskeleton maintenance, cell cycle progression and apoptosis, corroborating its antiproliferative potential.

De Schutter, A, Correia HD, Freire DM, Rivas MG, Rizzi A, Santos-Silva T, González PJ, Van Doorslaer S.  2015.  Ligand Binding to Chlorite Dismutase from Magnetospirillum sp, October. The journal of physical chemistry. B. 119:13859—13869., Number 43 AbstractWebsite
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Marques, AC, Santos L, Costa MN, Dantas JM, Duarte P, Gonçalves A, Martins R, Salgueiro CA, Fortunato E.  2015.  {Office paper platform for bioelectrochromic detection of electrochemically active bacteria using tungsten trioxide nanoprobes.}, jan. Scientific reports. 5:9910. AbstractWebsite

Electrochemically active bacteria (EAB) have the capability to transfer electrons to cell exterior, a feature that is currently explored for important applications in bioremediation and biotechnology fields. However, the number of isolated and characterized EAB species is still very limited regarding their abundance in nature. Colorimetric detection has emerged recently as an attractive mean for fast identification and characterization of analytes based on the use of electrochromic materials. In this work, WO3 nanoparticles were synthesized by microwave assisted hydrothermal synthesis and used to impregnate non-treated regular office paper substrates. This allowed the production of a paper-based colorimetric sensor able to detect EAB in a simple, rapid, reliable, inexpensive and eco-friendly method. The developed platform was then tested with Geobacter sulfurreducens, as a proof of concept. G. sulfurreducens cells were detected at latent phase with an RGB ratio of 1.10 ± 0.04, and a response time of two hours.

Nunes, D, Santos L, Duarte P, Pimentel A, Pinto JV, Barquinha P, Carvalho PA, Fortunato E, Martins R.  2015.  {Room temperature synthesis of Cu₂O nanospheres: optical properties and thermal behavior.}, feb. Microscopy and microanalysis : the official journal of Microscopy Society of America, Microbeam Analysis Society, Microscopical Society of Canada. 21:108–19., Number 1 AbstractWebsite

The present work reports a simple and easy wet chemistry synthesis of cuprous oxide (Cu2O) nanospheres at room temperature without surfactants and using different precursors. Structural characterization was carried out by X-ray diffraction, transmission electron microscopy, and scanning electron microscopy coupled with focused ion beam and energy-dispersive X-ray spectroscopy. The optical band gaps were determined from diffuse reflectance spectroscopy. The photoluminescence behavior of the as-synthesized nanospheres showed significant differences depending on the precursors used. The Cu2O nanospheres were constituted by aggregates of nanocrystals, in which an on/off emission behavior of each individual nanocrystal was identified during transmission electron microscopy observations. The thermal behavior of the Cu2O nanospheres was investigated with in situ X-ray diffraction and differential scanning calorimetry experiments. Remarkable structural differences were observed for the nanospheres annealed in air, which turned into hollow spherical structures surrounded by outsized nanocrystals.

Delgado, JM, Raymundo A, Vilarigues M, Branco LC, Laia CAT.  2015.  Characterization of a Novel Intrinsic Luminescent Room-Temperature Ionic Liquid Based on P-6,P-6,P-6,P-14 ANS, 2015. Chemistry-a European Journal. 21(2):726-732. AbstractWebsite
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Mendo, AS, Figueiredo S, Roma-Rodrigues C, Videira PA, Ma Z, Diniz M, Larguinho M, Costa PM, Lima JC, Pombeiro AJL, Baptista PV, Fernandes AR.  2015.  Characterization of antiproliferative potential and biological targets of a copper compound containing 4'-phenyl terpyridine, 2015. Journal of Biological Inorganic Chemistry. 20(6):935-948. AbstractWebsite
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Viciosa, MT, Santos G, Costa A, Danede F, Branco LC, Jordao N, Correia NT, Dionisio M.  2015.  Dipolar motions and ionic conduction in an ibuprofen derived ionic liquid, 2015. Physical Chemistry Chemical Physics. 17(37):24108-24120. AbstractWebsite
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Costa, D, Galvao AM, Di Paolo RE, Freitas AA, Lima JC, Quina FH, Macanita AL.  2015.  Photochemistry of the hemiketal form of anthocyanins and its potential role in plant protection from UV-B radiation, 2015. Tetrahedron. 71(20):3157-3162. AbstractWebsite
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Pikramenou, Z, Weinstein J, Pan Q, Lewis F, Bassani DM, Wurthner F, Moucheron C, Slota M, Diaz-Moscoso A, Karlsson J, Basilio N, Adams D, Scandola F, Bohne C, Lemon C, Campagna S, Rohacova J, Ohashi K, Plotz PA, Monti F, Kelly JM, Keane P, Gibson E, Lemercier G, Ruggi A, Cucinotta F, Gust D, Bradberry S, Vos J, Pistolis G, Mauro M, Tuite E, De Cola L, Ceroni P, Maneiro M, Galoppini E, Gunnlaugsson T.  2015.  Self-organization of photo-active nanostructures: general discussion, 2015. Faraday Discussions. 185:529-548. AbstractWebsite
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Diniz, AM, Basilio N, Cruz H, Pina F, Parola AJ.  2015.  Spatiotemporal control over the co-conformational switching in pH-responsive flavylium-based multistate pseudorotaxanes, 2015. Faraday Discussions. 185:361-379. AbstractWebsite
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