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2009
Paulino, Hervé, and Carlos Tavares. "SeDeUse: A Model for Service-oriented Computing in Dynamic Environments." Mobile Wireless Middleware, Operating Systems and Applications. Second International Conference, Mobilware 2009, Berlin, Germany, April 28-29, 2009. Ed. Carlo; Magedanz Thomas Bonnin, Jean-Marie; Giannelli. Lecture Notes of the Institute for Computer Sciences, Social-Informatics and Telecommunications Engi. Springer-Verlag, 2009. 157-170. Abstract
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Schoch, CL, PW Crous, JZ Groenewald, EWA Boehm, TI Burgess, J. de Gruyter, GS de Hoog, LJ Dixon, M. Grube, C. Gueidan, Y. Harada, S. Hatakeyama, K. Hirayama, T. Hosoya, SM Huhndorf, KD Hyde, EBG Jones, J. Kohlmeyer, A. Kruys, YM Li, R. Lucking, HT Lumbsch, L. Marvanova, JS Mbatchou, AH Mcvay, AN Miller, GK Mugambi, L. Muggia, MP Nelsen, P. Nelson, CA Owensby, AJL Phillips, S. Phongpaichit, SB Pointing, V. Pujade-Renaud, HA Raja, ER Plata, B. Robbertse, C. Ruibal, J. Sakayaroj, T. Sano, L. Selbmann, CA Shearer, T. Shirouzu, B. Slippers, S. Suetrong, K. Tanaka, B. Volkmann-Kohlmeyer, MJ WINGFIELD, AR Wood, JHC Woudenberg, H. Yonezawa, Y. Zhang, and JW Spatafora. "A class-wide phylogenetic assessment of Dothideomycetes." Studies in Mycology. 64 (2009): 1-15. Abstract

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Silva, Tiago A. N., C. R. Leal, A. Rodrigues, M. F. Bento, and João M. C. Travassos Anisotropic Solutions Applied to a Smart Damper. IV ECCOMAS Thematic Conference on Smart Structures and Materials (SMART'09)., 2009. Abstract
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Conrath, K., AS Pereira, C. E. Martins, C. G. Timoteo, P. Tavares, S. Spinelli, J. Kinne, C. Flaudrops, C. Cambillau, S. Muyldermans, I. Moura, JJG Moura, M. Tegoni, and A. Desmyter. "Camelid nanobodies raised against an integral membrane enzyme, nitric oxide reductase." Protein Science. 18 (2009): 619-628. AbstractWebsite

Nitric Oxide Reductase (NOR) is an integral membrane protein performing the reduction of NO to N(2)O. NOR is composed of two subunits: the large one (NorB) is a bundle of 12 transmembrane helices (TMH). It contains a b type heme and a binuclear iron site, which is believed to be the catalytic site, comprising a heme b and a non-hemic iron. The small subunit (NorC) harbors a cytochrome c and is attached to the membrane through a unique TMH. With the aim to perform structural and functional studies of NOR, we have immunized dromedaries with NOR and produced several antibody fragments of the heavy chain (VHHs, also known as nanobodies (TM)). These fragments have been used to develop a faster NOR purification procedure, to proceed to crystallization assays and to analyze the electron transfer of electron donors. BIAcore experiments have revealed that up to three VHHs can bind concomitantly to NOR with affinities in the nanomolar range. This is the first example of the use of VHHs with an integral membrane protein. Our results indicate that VHHs are able to recognize with high affinity distinct epitopes on this class of proteins, and can be used as versatile and valuable tool for purification, functional study and crystallization of integral membrane proteins.

Meil, Pamela, Maria Stratigaki, Petros Linardos, Per Tengblad, Peter Docherty, Duco Bannink, Antonio Moniz, Margarida Paulos, Bettina Krings, and Linda Nierling Challenges for Europe under value chain restructuring: Contributions to policy debates., 2009. Abstract

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Pereira, AS, F. Folgosa, M. Guilherme, A. G. Duarte, C. G. Timóteo, P. Tavares, and BH HUYNH. "Concerted iron and oxygen detoxification at the tri-nuclear Fe site of bacterial ferritin from Desulfovibrio vulgaris Hildenborough." J Biol Inorg Chem. 14 (2009): S34. Abstract
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Tomas, C., O. Mateus, and C. Abreu. "Dinolourinhã – a integração dos jovens na paleontologia: o caso-estudo do Museu da Lourinhã." Journal of Paleontological Techniques 5: 28-29. 2009. Abstract
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Godinho, M. H., João P. Canejo, P. Brogueira, and Paulo Ivo Cortez Teixeira. "Espirais e Hélices-Do Polímero mais abundante da natureza." Gazeta de Física. 32.4 (2009): 2-6. Abstract
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Cordoyiannis, G., LFV Pinto, M. H. Godinho, Christ Glorieux, and Jan Thoen. "High-resolution calorimetric study of the phase transitions of tridecylcyanobiphenyl and tetradecylcyanobiphenyl liquid crystals." Phase Transitions. 82.3 (2009): 280-289. Abstract
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Godinho, M. H., João P. Canejo, LFV Pinto, J. P. Borges, and Paulo Ivo Cortez Teixeira. "How to mimic the shapes of plant tendrils on the nano and microscale: spirals and helices of electrospun liquid crystalline cellulose derivatives." Soft Matter. 5.14 (2009): 2772-2776. Abstract
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Rivas, M. G., C. S. Mota, S. R. Pauleta, M. S. P. Carepo, F. Folgosa, S. L. A. Andrade, G. Fauque, AS Pereira, P. Tavares, JJ Calvete, I. Moura, and JJG Moura. "Isolation and characterization of a new Cu-Fe protein from Desulfovibrio aminophilus DSM12254." Journal of Inorganic Biochemistry. 103 (2009): 1314-1322. AbstractWebsite

The isolation and characterization of a new metalloprotein containing Cu and Fe atoms is reported. The as-isolated Cu-Fe protein shows an UV-visible spectrum with absorption bands at 320 nm, 409 nm and 615 nm. Molecular mass of the native protein along with denaturating electrophoresis and mass spectrometry data show that this protein is a multimer consisting of 14 +/- 1 subunits of 15254.3 +/- 7.6 Da. Mossbauer spectroscopy data of the as-isolated Cu-Fe protein is consistent with the presence of [2Fe-2S](2+) centers. Data interpretation of the dithionite reduced protein suggest that the metallic cluster could be constituted by two ferromagnetically coupled [2Fe-2S](+) spin delocalized pairs. The biochemical properties of the Cu-Fe protein are similar to the recently reported molybdenum resistance associated protein from Desulfovibrio, D. alaskensis. Further-more, a BLAST search from the DNA deduced amino acid sequence shows that the Cu-Fe protein has homology with proteins annotated as zinc resistance associated proteins from Desulfovibrio, D. alaskensis, D. vulgaris Hildenborough, D. piger ATCC 29098. These facts suggest a possible role of the Cu-Fe protein in metal tolerance. (C) 2009 Published by Elsevier Inc.

Santos-Silva, T., F. Ferroni, A. Thapper, J. Marangon, P. J. González, A. C. Rizzi, I. Moura, JJG Moura, MJ Romão, and CD Brondino. "Kinetic, structural, and EPR studies reveal that aldehyde oxidoreductase from Desulfovibrio gigas does not need a sulfido ligand for catalysis and give evidence for a direct Mo-C interaction in a biological system." Journal of the American Chemical Society. 131 (2009): 7990-7998. Abstract
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Godinho, M. H., D. Filip, I. Costa, A. - L. Carvalho, J. L. Figueirinhas, and E. M. Terentjev. "Liquid crystalline cellulose derivative elastomer films under uniaxial strain." Cellulose. 16 (2009): 199-205. Abstract
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Godinho, M. H., D. Filip, I. Costa, A. - L. Carvalho, J. L. Figueirinhas, and E. M. Terentjev. "Liquid crystalline cellulose derivative elastomer films under uniaxial strain." Cellulose. 16.2 (2009): 199-205. Abstract
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Mateus, O., L. Jacobs, M. Polcyn, AS Schulp, D. Vineyard, A. Buta Neto, and M. Telles Antunes. "The oldest African eucryptodiran turtle from the Cretaceous of Angola." Acta Palaeontologica Polonica. 54 (2009): 581-588. Abstract
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Fortunato, E., Nuno Correia, Pedro Barquinha, Claudia Costa, Luis Pereira, Goncalo Goncalves, and Rodrigo Martins. "Paper Field Effect Transistor." Zinc Oxide Materials and Devices Iv. Eds. F. H. Teherani, C. W. Litton, and D. J. Rogers. Vol. 7217. Proceedings of SPIE, 7217. 2009. Abstract
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Torosantucci, Antonella, Paola Chiani, Carla Bromuro, Flavia De Bernardis, Angelina S. Palma, Yan Liu, Giuseppina Mignogna, Bruno Maras, Marisa Colone, Annarita Stringaro, Silvia Zamboni, Ten Feizi, and Antonio Cassone. "Protection by Anti-beta-Glucan Antibodies Is Associated with Restricted beta-1,3 Glucan Binding Specificity and Inhibition of Fungal Growth and Adherence." Plos One. 4 (2009). Abstract
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Martins, R., L. Pereira, P. Barquinha, I. Ferreira, R. Prabakaran, G. GONCALVES, A. Goncalves, and E. Fortunato. "Zinc oxide and related compounds: order within the disorder." Zinc Oxide Materials and Devices Iv. Eds. F. H. Teherani, C. W. Litton, and D. J. Rogers. Vol. 7217. Proceedings of SPIE, 7217. 2009. Abstract
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Neshataeva, Ekaterina, Tilmar Kuemmell, André Ebbers, Gerd Bacher, David J. Rogers, VE Sandana, Hosseini F. Teherani, M. Razeghi, HJ Drouhin, and R. Martins. "Zinc Oxide Materials and Devices IV (Proceedings Volume)." (2009). Abstract
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Conrath, Katja, Alice S. Pereira, Carlos E. Martins, Cristina G. Timoteo, Pedro Tavares, Silvia Spinelli, Joerg Kinne, Christophe Flaudrops, Christian Cambillau, Serge Muyldermans, Isabel Moura, Jose J. G. Moura, Mariella Tegoni, and Aline Desmyter. "{Camelid nanobodies raised against an integral membrane enzyme, nitric oxide reductase}." Protein science : a publication of the Protein Society. 18 (2009): 619-628. Abstract
Nitric Oxide Reductase (NOR) is an integral membrane protein performing the reduction of NO to N2O. NOR is composed of two subunits: the large one (NorB) is a bundle of 12 transmembrane helices (TMH). It contains a b type heme and a binuclear iron site, which is believed to be the catalytic site, comprising a heme b and a non-hemic iron. The small subunit (NorC) harbors a cytochrome c and is attached to the membrane through a unique TMH. With the aim to perform structural and functional studies of NOR, we have immunized dromedaries with NOR and produced several antibody fragments of the heavy chain (VHHs, also known as nanobodies (TM)). These fragments have been used to develop a faster NOR purification procedure, to proceed to crystallization assays and to analyze the electron transfer of electron donors. BIAcore experiments have revealed that up to three VHHs can bind concomitantly to NOR with affinities in the nanomolar range. This is the first example of the use of VHHs with an integral membrane protein. Our results indicate that VHHs are able to recognize with high affinity distinct epitopes on this class of proteins, and can be used as versatile and valuable tool for purification, functional study and crystallization of integral membrane proteins.
Said, R., N. Ali, C. A. A. Ghumman, O. M. N. D. Teodoro, and W. Ahmed. "{Characterisation of DLC Films Deposited Using Titanium Isopropoxide (TIPOT) at Different Flow Rates}." Journal of nanoscience and nanotechnology. 9 (2009): 4298-4304. Abstract

In recent years, there has been growing interest in the search for advanced biomaterials for biomedical applications, such as human implants and surgical cutting tools. It is known that both carbon and titanium exhibit good biocompatibility and have been used as implants in the human body. It is highly desirable to deposit biocompatible thin films onto a range of components in order to impart biocompatibility and to minimise wear in implants. Diamond like carbon (DLC) is a good candidate material for achieving biocompatibility and low wear rates. In this study, thin films of diamond-like-carbon DLC were deposited onto stainless steel (316) substrates using C2H2, argon and titanium isopropoxide (TIPOT) precursors. Argon was used to generate the plasma in the plasma enhanced vapour deposition (PECVD) system. A critical coating feature governing the performance of the component during service is film thickness. The as-grown films were in the thickness range 90-100 nm and were found to be dependent on TIPOT flow rate. Atomic force microscopy (AFM) was used to characterise the surface roughness of the samples. As the flow rate of TIPOT increased the average roughness was found to increase in conjunction with the film thickness. Raman spectroscopy was used to investigate the chemical structure of amorphous carbon matrix. Surface tension values were calculated using contact angle measurements. In general, the trend of the surface tension results exhibited an opposite trend to that of the contact angle. The elemental composition of the samples was characterised using a VG ToF SIMS (IX23LS) instrument and X-ray photoelectron spectroscopy (XPS). Surprisingly, SIMS and XPS results showed that the DLC samples did not show evidence of titanium since no peaks representing to titanium appeared on the SIMS/XPS spectra.

Martí, A., E. Antolín, P. G. Linares, E. Cánovas, D. {Fuertes Marrón}, C. Tablero, M. Mendes, A. Mellor, I. Tobías, M. Y. Levy, E. Hernández, A. Luque, C. D. Farmer, C. R. Stanley, R. P. Campion, J. L. Hall, S. V. Novikov, C. T. Foxon, R. Scheer, B. Marsen, H. W. Schock, M. Picault, and C. Chaix. "{IBPOWER: Intermediate band materials and solar cells for photovoltaics with high efficiency and reduced cost}." Conference Record of the IEEE Photovoltaic Specialists Conference. 2009. Abstract
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Rivas, Maria G., Cristiano S. Mota, Sofia R. Pauleta, Marta S. P. Carepo, Filipe Folgosa, Susana L. A. Andrade, Guy Fauque, Alice S. Pereira, Pedro Tavares, Juan J. Calvete, Isabel Moura, and Jose J. G. Moura. "{Isolation and characterization of a new Cu-Fe protein from Desulfovibrio aminophilus DSM12254.}." Journal Of Inorganic Biochemistry. 103 (2009): 1314-1322. Abstract
The isolation and characterization of a new metalloprotein containing Cu and Fe atoms is reported. The as-isolated Cu-Fe protein shows an UV-visible spectrum with absorption bands at 320 nm, 409 nm and 615 nm. Molecular mass of the native protein along with denaturating electrophoresis and mass spectrometry data show that this protein is a multimer consisting of 14+/-1 subunits of 15254.3+/-7.6 Da. Mössbauer spectroscopy data of the as-isolated Cu-Fe protein is consistent with the presence of [2Fe-2S](2+) centers. Data interpretation of the dithionite reduced protein suggest that the metallic cluster could be constituted by two ferromagnetically coupled [2Fe-2S](+) spin delocalized pairs. The biochemical properties of the Cu-Fe protein are similar to the recently reported molybdenum resistance associated protein from Desulfovibrio, D. alaskensis. Furthermore, a BLAST search from the DNA deduced amino acid sequence shows that the Cu-Fe protein has homology with proteins annotated as zinc resistance associated proteins from Desulfovibrio, D. alaskensis, D. vulgaris Hildenborough, D. piger ATCC 29098. These facts suggest a possible role of the Cu-Fe protein in metal tolerance.
Ayouchi, R., L. Bentes, C. Casteleiro, O. Conde, C. P. Marques, E. Alves, A. M. C. Moutinho, H. P. Marques, O. Teodoro, and R. Schwarz. "{Photosensitivity of nanocrystalline ZnO films grown by PLD}." Applied Surface Science. 255 (2009): 5917-5921. Abstract

We have studied the properties of ZnO thin films grown by laser ablation of ZnO targets on (0 0 0 1) sapphire (Al2O3), under substrate temperatures around 400 8C. The films were characterized by different methods including X-ray photoelectron spectroscopy (XPS), X-ray diffraction (XRD) and atomic force microscopy (AFM). XPS analysis revealed that the films are oxygen deficient, and XRD analysis with u–2u scans and rocking curves indicate that the ZnO thin films are highly c-axis oriented. All the films are ultraviolet (UV) sensitive. Sensitivity is maximum for the films deposited at lower temperature. The films deposited at higher temperatures show crystallite sizes of typically 500 nm, a high dark current and minimum photoresponse. In all films we observe persistent photoconductivity decay. More densely packed crystallites and a faster decay in photocurrent is observed for films deposited at lower temperature.