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2008
Rato, RT, Ortigueira MD, Batista AG.  2008.  On the HHT, its problems, and some solutions. Mechanical Systems and Signal Processing. :1374–1394. Abstract
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Ortigueira, MD, Batista AG.  2008.  On the relation between the fractional Brownian motion and the fractional derivatives. Physics Letters. A:958–968. Abstract
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Najmudin, S, Gonzalez PJ, Trincao J, Coelho C, Mukhopadhyay A, Cerqueira NMFSA, Romao CC, Moura I, Moura JJG, Brondino CD, Romao MJ.  2008.  Periplasmic nitrate reductase revisited: a sulfur atom completes the sixth coordination of the catalytic molybdenum. Journal of Biological Inorganic Chemistry. 13:737-753., Number 5 AbstractWebsite
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Vidinha, P, Augusto V, Nunes J, Lima JC, Cabral JMS, Barreiros S.  2008.  Probing the microenvironment of sol-gel entrapped cutinase: The role of added zeolite NaY. Journal of Biotechnology. 135:181-189., Number 2 Abstract
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Gavel, OY, Kladova AV, Bursakov SA, Dias JM, Texeira S, Shnyrov VL, Moura JJG, Moura I, Romao MJ, Trincao J.  2008.  Purification, crystallization and preliminary X-ray diffraction analysis of adenosine triphosphate sulfurylase (ATPS) from the sulfate-reducing bacterium Desulfovibrio desulfuricans ATCC 27774. Acta Crystallographica Section F-Structural Biology and Crystallization Communications. 64:593-595. AbstractWebsite
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Branco, LC, Ferreira FC, Santos JL, Crespo JG, Afonso CAM.  2008.  Sharpless asymmetric dihydroxylation of olefins in water-surfactant media with recycling of the catalytic system by membrane nanofiltration. Advanced Synthesis & Catalysis. 350:2086-2098., Number 13 AbstractWebsite
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Barbazan, P, Carballo R, Covelo B, Lodeiro C, Lima JC, Vazquez-Lopez EM.  2008.  Synthesis, characterization, and photophysical properties of 2-hydroxybenzaldehyde [(1E)-1-pyridin-2-ylethylidene]hydrazone and its rhenium(I) complexes. European Journal of Inorganic Chemistry. :2713-2720., Number 17 Abstract
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Nunez, C, Oliveira E, Giestas L, Valencia L, Macias A, Lima JC, Bastida R, Lodeiro C.  2008.  Synthesis, spectroscopic, structural and complexation studies of a new tetra-naphthylmethylene pendant-armed macrocyclic ligand. Inorganica Chimica Acta. 361:2183-2194., Number 8 Abstract
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Claro, A, Melo MJ, Schafer S, de Melo SSJ, Pina F, van den Berg KJ, Burnstock A.  2008.  The use of microspectrofluorimetry for the characterization of lake pigments. Talanta. 74:922-929., Number 4 AbstractWebsite
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Fortunato, E, Correia N, Barquinha P, Pereira LÍ, Goncalves G\c{C}alo, Martins R.  2008.  {High-Performance Flexible Hybrid Field-Effect Transistors Based on Cellulose Fiber Paper}. IEEE Electron Device Letters. 29:988–990., Number 9 AbstractWebsite

In this letter, we report for the first time the use of a sheet of cellulose-fiber-based paper as the dielectric layer used in oxide-based semiconductor thin-film field-effect transis- tors (FETs). In this new approach, we are using the cellulose– fiber-based paper in an “interstrate” structure since the device is built on both sides of the cellulose sheet. Such hybrid FETs present excellent operating characteristics such as high channel saturation mobility (> 30 cm2/Vs), drain–source current on/off modulation ratio of approximately 104, near-zero threshold voltage, enhance- ment n-type operation, and subthreshold gate voltage swing of 0.8 V/decade. The cellulose-fiber-based paper FETs’ character- istics have been measured in air ambient conditions and present good stability, after two months of being processed. The obtained results outpace those of amorphous Si thin-film transistors (TFTs) and rival with the same oxide-based TFTs produced on either glass or crystalline silicon substrates. The compatibility of these devices with large-scale/large-area deposition techniques and low– cost substrates as well as their very low operating bias delin- eates this as a promising approach to attain high-performance disposable electronics like paper displays, smart labels, smart packaging, RFID, and point-of-care systems for self-analysis in bioapplications, among others.

Martins, R, Barquinha P, Pereira L, Correia N, Gonçalves G, Ferreira I, Fortunato E.  2008.  {Write-erase and read paper memory transistor}. Applied Physics Letters. 93:203501., Number 20 AbstractWebsite
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2007
Brand, T, Cabrita EJ, Morris GA, Guenther R, Hofmann H-J, Berger S.  2007.  Residue-specific NH exchange rates studied by NMR diffusion experiments (vol 187, pg 97, 2007), OCT 2007. Journal of Magnetic Resonance. 188:387-387., Number 2 Abstract

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Rivas, MG, Gonzalez PJ, Brondino CD, Moura JJ, Moura I.  2007.  EPR characterization of the molybdenum(V) forms of formate dehydrogenase from Desulfovibrio desulfuricans ATCC 27774 upon formate reduction, Nov. J Inorg Biochem. 101:1617-22., Number 11-12 AbstractWebsite

The EPR characterization of the molybdenum(V) forms obtained on formate reduction of both as-prepared and inhibited formate dehydrogenase from Desulfovibrio desulfuricans ATCC 27774, an enzyme that catalyzes the oxidation of formate to CO(2), is reported. The Mo(V) EPR signal of the as-prepared formate-reduced enzyme is rhombic (g(max)=2.012, g(mid)=1.996, g(min)=1.985) and shows hyperfine coupling with two nuclear species with I=1/2. One of them gives an anisotropic splitting and is not solvent exchangeable (A(max)=11.7, A(mid)=A(min)=non-detectable, A-values in cm(-1)x10(-4)). The second species is exchangeable with solvent and produces a splitting at the three principal g-values (A(max)=7.7, A(mid)=10.0, A(min)=9.3). The hyperfine couplings of the non-solvent and solvent exchangeable nuclei are assigned to the hydrogen atoms of the beta-methylene carbon of a selenocysteine and to a Mo ligand whose nature, sulfydryl or hydroxyl, is still in debate. The Mo(V) species obtained in the presence of inhibitors (azide or cyanide) yields a nearly axial EPR signal showing only one detectable splitting given by nuclear species with I=1/2 (g(max)=2.092, g(mid)=2.000, g(min)=1.989, A(max)=non-detectable, A(mid)=A(min)=7.0), which is originated from the alpha-proton donated by the formate to a proximal ligand of the molybdenum. The possible structures of both paramagnetic molybdenum species (observed upon formate reduction in presence and absence of inhibitors) are discussed in comparison with the available structural information of this enzyme and the structural and EPR properties of the closely related formate dehydrogenase-H from Escherichia coli.

Thapper, A, Boer DR, Brondino CD, Moura JJ, Romao MJ.  2007.  Correlating EPR and X-ray structural analysis of arsenite-inhibited forms of aldehyde oxidoreductase, Mar. J Biol Inorg Chem. 12:353-66., Number 3 AbstractWebsite

Two arsenite-inhibited forms of each of the aldehyde oxidoreductases from Desulfovibrio gigas and Desulfovibrio desulfuricans have been studied by X-ray crystallography and electron paramagnetic resonance (EPR) spectroscopy. The molybdenum site of these enzymes shows a distorted square-pyramidal geometry in which two ligands, a hydroxyl/water molecule (the catalytic labile site) and a sulfido ligand, have been shown to be essential for catalysis. Arsenite addition to active as-prepared enzyme or to a reduced desulfo form yields two different species called A and B, respectively, which show different Mo(V) EPR signals. Both EPR signals show strong hyperfine and quadrupolar couplings with an arsenic nucleus, which suggests that arsenic interacts with molybdenum through an equatorial ligand. X-ray data of single crystals prepared from EPR-active samples show in both inhibited forms that the arsenic atom interacts with the molybdenum ion through an oxygen atom at the catalytic labile site and that the sulfido ligand is no longer present. EPR and X-ray data indicate that the main difference between both species is an equatorial ligand to molybdenum which was determined to be an oxo ligand in species A and a hydroxyl/water ligand in species B. The conclusion that the sulfido ligand is not essential to determine the EPR properties in both Mo-As complexes is achieved through EPR measurements on a substantial number of randomly oriented chemically reduced crystals immediately followed by X-ray studies on one of those crystals. EPR saturation studies show that the electron transfer pathway, which is essential for catalysis, is not modified upon inhibition.

Gaspar, {JF}, Baptista {PV}, Rueff J.  2007.  Gold nanoparticle based systems in genetics, mar. Current Pharmacogenomics. 5:39–47., Number 1: Bentham Science Publishers Abstract

Advances in nanoscience are having a significant impact on many scientific fields, boosting the development of a variety of important technologies. The impact of these new technologies is particularly large in biodiagnostics, where a number of nanoparticle-based assays have been introduced for biomolecular detection. The physicochemical malleability and high surface areas of nanoparticle surfaces make them ideal candidates for developing biomarker platforms. Given the variety of strategies afforded through nanoparticle technologies, a significant goal is to tailor nanoparticle surfaces to selectively bind a subset of biomarkers, either for direct detection and characterization or to sequester the target molecules for later study using other available techniques. To date, applications of nanoparticles have largely focused on DNA- or protein-functionalized gold nanoparticles used as the target-specific probes. These unique biophysical properties displayed by gold nanoparticles have huge advantages over conventional detection methods (e.g., molecular fluorophores, microarray technologies). These gold-nanoparticle based systems can then be used for the detection of specific sequences of DNA (pathogen detection, characterization of mutation and/or SNPs) or RNA (without previous retro-transcription and amplification.

Capela, JP, Macedo C, Branco PS, Ferreira LM, Lobo AM, Fernandes E, Remiao F, Bastos ML, Dirnagl U, Meisel A, Carvalho F.  2007.  Neurotoxicity mechanisms of thioether ecstasy metabolites, JUN 8. NEUROSCIENCE. 146:1743-1757., Number 4 Abstract
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Antunes, AMM, Bonifacio VDB, Nascimento SCC, Lobo AM, Branco PS, Prabhakar S.  2007.  Palladium(II) mediated aziridination of olefins with bromamine-T as the nitrogen source: scope and mechanism, JUL 23. TETRAHEDRON. 63:7009-7017., Number 30 Abstract
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Brand, T, Cabrita EJ, Morris GA, Guenther R, Hofmann H-J, Berger S.  2007.  Residue-specific NH exchange rates studied by NMR diffusion experiments, JUL 2007. Journal of Magnetic Resonance. 187:97-104., Number 1 Abstract

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Almeida, MG, Silveira CM, Guigliarelli B, Bertrand P, Moura JJ, Moura I, Leger C.  2007.  A needle in a haystack: the active site of the membrane-bound complex cytochrome c nitrite reductase, Jan 23. FEBS Lett. 581:284-8., Number 2 AbstractWebsite

Cytochrome c nitrite reductase is a multicenter enzyme that uses a five-coordinated heme to perform the six-electron reduction of nitrite to ammonium. In the sulfate reducing bacterium Desulfovibrio desulfuricans ATCC 27774, the enzyme is purified as a NrfA2NrfH complex that houses 14 hemes. The number of closely-spaced hemes in this enzyme and the magnetic interactions between them make it very difficult to study the active site by using traditional spectroscopic approaches such as EPR or UV-Vis. Here, we use both catalytic and non-catalytic protein film voltammetry to simply and unambiguously determine the reduction potential of the catalytic heme over a wide range of pH and we demonstrate that proton transfer is coupled to electron transfer at the active site.

de Martins, {RFP}, Baptista P, Raniero L, c}alo Doria G{\c, Silva {LB }, Franco R, Fortunato {EMC}.  2007.  Amorphous/nanocrystalline silicon biosensor for the specific identification of unamplified nucleic acid sequences using gold nanoparticle probes, jan. Applied Physics Letters. 90:n/d., Number 2: AIP - American Institute of Physics Abstract

Amorphous/nanocrystalline silicon pi'ii'n devices fabricated on micromachined glass substrates are integrated with oligonucleotide-derivatized gold nanoparticles for a colorimetric detection method. The method enables the specific detection and quantification of unamplified nucleic acid sequences (DNA and RNA) without the need to functionalize the glass surface, allowing for resolution of single nucleotide differences between DNA and RNA sequences-single nucleotide polymorphism and mutation detection. The detector's substrate is glass and the sample is directly applied on the back side of the biosensor, ensuring a direct optical coupling of the assays with a concomitant maximum photon capture and the possibility to reuse the sensor. (c) 2007 American Institute of Physics.

Baptista, {PMRV}, Franco R.  2007.  Imaging gold nanoparticles for DNA sequence recognition in biomedical applications, jan. Ieee Transactions On Nanobioscience. 6:282–288., Number 4: Institute of Electrical and Electronics Engineers (IEEE) Abstract

The hybridization of single-stranded oligonucleotide-derivatized gold nanoparticles (An nanoprobes) with double stranded complementary DNA was directly observed by atomic force microscopy (AFM). This specific interaction is the basis for an An nanoprobe-based homogeneous assay for specific DNA sequence detection, based on salt-induced particle aggregation that is prevented when a complementary target is present. For long DNA targets (linearized plasmid DNA) complicated hybridized target DNA-Au-nanoprobes structures were formed, that were interpreted as the basis for stability of the An nanoprobes against salt-induced aggregation. For shorter DNA targets (PCR amplified fragments) hybridization with the An nanoprobes occurred, in the majority of cases, in the expected location of the DNA target fragment containing the specific sequence. The formation of the observed DNA hybridized structures provides evidence at the molecular level for specific hybridization to the target sequence as the method of binding of the An nanoprobes.

Baptista, {PMRV}, Franco R.  2007.  Nanodiagnostics: fast colorimetric method for single nucleotide polymorphism/mutation detection, jan. Iet Nanobiotechnology. 1:53–57., Number 4: INST ENGINEERING TECHNOLOGY-IET Abstract

Advances in nanosciences are having a significant impact in many areas of research. The impact of new nanotechnologies has been particularly large in biodiagnostics, where a number of nanoparticle-based assays have been introduced for biomolecules detection. To date, applications of nanoparticles have largely focused on DNA-functionalised gold nanoparticles used as the target-specific probes. These gold nanoparticle-based systems can be used for the detection of specific sequences of DNA (pathogen detection, characterisation of mutation and/or single nucleotide polymorphisms) or RNA (without prior retro-transcription and amplification). Here a rapid and inexpensive nanoparticle-based method for single-base mismatch detection (single nucleotide polymorphism/mutation) in DNA samples is reported. Gold nanoparticles derivatised with thiol modified oligonucleotides complementary to DNA targets - Au-nanoprobes - are used to distinguish fully complementary from mismatched sequences, with a single-base mismatch. The authors have successfully applied this strategy to detect common mutations within the beta-globin gene.

Silva, {LB}, Baptista P, Raniero L, c}alo Dória G{\c, Franco R, de Martins {RFP}, Fortunato {EMC}.  2007.  Novel optoelectronic platform using an amorphous/nanocrystalline silicon biosensor for the specific identification of unamplified nucleic acid sequences based on gold nanoparticle probes, jan. Solid-State Sensors, Actuators and Microsystems Conference, 2007. :935–938. Abstract
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Macedo, C, Branco PS, Ferreira LM, Lobo AM, Capela JP, Fernandes E, de Lourdes Bastos M, Carvalho F.  2007.  Synthesis and cyclic voltammetry studies of 3,4-methylenedioxymethamphetamine (MDMA) human metabolites, FEB. JOURNAL OF HEALTH SCIENCE. 53:31-42., Number 1 Abstract
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Rauter, AP, Branco I, Lopes RG, Justino J, Silva FVM, Noronha JP, Cabrita EJ, Brouard I, Bermejo J.  2007.  A new lupene triterpenetriol and anticholinesterase activity of Salvia sclareoides, DEC 2007. Fitoterapia. 78:474-481., Number 7-8 Abstract

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