A new member of the ribbon-helix-helix transcription factor superfamily from the plant pathogen Xanthomonas axonopodis pv. citri

XACb0070 is an uncharacterized protein coded by the two large plasmids isolated from Xanthomonas axonopodis pv. cirri, the agent of citrus canker and responsible for important economical losses in citrus world production. XACb0070 presents sequence homology only with other hypothetical proteins belonging to plant pathogens, none of which have their structure determined. The NMR-derived solution structure reveals this protein is a homodimer in which each monomer presents two domains with different structural and dynamic properties: a folded N-terminal domain with beta alpha alpha topology which mediates dimerization and a long disordered C-terminal tail. The folded domain shows high structural similarity to the ribbon-helix-helix transcriptional repressors, a family of DNA-binding proteins of conserved 3D fold but low sequence homology: indeed XACb0070 binds DNA. Primary sequence and fold comparison of XACb0070 with other proteins of the ribbon-helix-helix family together with examination of the genes in the vicinity of xacb0070 suggest the protein might be the component of a toxin-antitoxin system. (C) 2010 Elsevier Inc. All rights reserved.

Structure, Dynamics, and RNA Interaction Analysis of the Human SBDS Protein

Shwachman-Bodian-Diamond syndrome is an autosomal recessive genetic syndrome with pleiotropic phenotypes, including pancreatic deficiencies, bone marrow dysfunctions with increased risk of myelodysplasia or leukemia, and skeletal abnormalities. This syndrome has been associated with mutations in the SBDS gene, which encodes a conserved protein showing orthologs in Archaea and eukaryotes. The Shwachman-Bodian-Diamond syndrome pleiotropic phenotypes may be an indication of different cell type requirements for a fully functional SBDS protein. RNA-binding activity has been predicted for archaeal and yeast SBDS orthologs, with the latter also being implicated in ribosome biogenesis. However, full-length SBDS orthologs function in a species-specific manner, indicating that the knowledge obtained from model systems may be of limited use in understanding major unresolved issues regarding SBDS function, namely, the effect of mutations in human SBDS on its biochemical function and the specificity of RNA interaction. We determined the solution structure and backbone dynamics of the human SBDS protein and describe its RNA binding site using NMR spectroscopy. Similarly to the crystal structures of Archaea, the overall structure of human SBDS comprises three well-folded domains. However, significant conformational exchange was observed in NMR dynamics experiments for the flexible linker between the N-terminal domain and the central domain, and these experiments also reflect the relative motions of the domains. RNA titrations monitored by heteronuclear correlation experiments and chemical shift mapping analysis identified a classic RNA binding site at the N-terminal FYSH (fungal, Yhr087wp, Shwachman) domain that concentrates most of the mutations described for the human SBDS. (C) 2010 Elsevier Ltd. All rights reserved.

DMSO-Induced Denaturation of Hen Egg White Lysozyme

We report on the size, shape, structure, and interactions of lysozyme in the ternary system lysozyme/DMSO/water at low protein concentrations. Three structural regimes have been identified, which we term the ""folded"" (0 < phi(DMSO) < 0.7), ""unfolded"" (0.7 <= phi(DMSO) < 0.9), and ""partially collapsed"" (0.9 <= phi(DMSO) < 1.0) regime. Lysozyme resides in a folded conformation with an average radius of gyration of 1.3 +/- 0.1 nm for phi(DMSO) < 0.7 and unfolds (average R(g) of 2.4 +/- 0.1 nm) above phi(DMSO) > 0.7. This drastic change in the protein`s size coincides with a loss of the characteristic tertiary structure. It is preceded by a compaction of the local environment of the tryptophan residues and accompanied by a large increase in the protein`s overall flexibility. In terms of secondary structure, there is a gradual loss of alpha-helix and concomitant increase of beta-sheet structural elements toward phi(DMSO) = 0.7, while an increase in phi(DMSO) at even higher DMSO volume fractions reduces the presence of both a-helix and beta-sheet secondary structural elements. Protein-protein interactions remain overall repulsive for all values of phi(DMSO) An attempt is made to relate these structural changes to the three most important physical mechanisms that underlie them: the DMSO/water microstructure is strongly dependent on the DMSO volume fraction, DMSO acts as a strong H-bond acceptor, and DMSO is a bad solvent for the protein backbone and a number of relatively polar side groups, but a good solvent for relatively apolar side groups, such as tryptophan.

Mixed-signal analog-digital circuits design on the pre-diffused digital array using trapezoidal association of transistors

The mixed-signal and analog design on a pre-diffused array is a challenging task, given that the digital array is a linear matrix arrangement of minimum-length transistors. To surmount this drawback a specific discipline for designing analog circuits over such array is required. An important novel technique proposed is the use of TAT (Trapezoidal Associations of Transistors) composite transistors on the semi-custom Sea-Of-Transistors (SOT) array. The analysis and advantages of TAT arrangement are extensively analyzed and demonstrated, with simulation and measurement comparisons to equivalent single transistors. Basic analog cells were also designed as well in full-custom and TAT versions in 1.0mm and 0.5mm digital CMOS technologies. Most of the circuits were prototyped in full-custom and TAT-based on pre-diffused SOT arrays. An innovative demonstration of the TAT technique is shown with the design and implementation of a mixed-signal analog system, i. e., a fully differential 2nd order Sigma-Delta Analog-to-Digital (A/D) modulator, fabricated in both full-custom and SOT array methodologies in 0.5mm CMOS technology from MOSIS foundry. Three test-chips were designed and fabricated in 0.5mm. Two of them are IC chips containing the full-custom and SOT array versions of a 2nd-Order Sigma-Delta A/D modulator. The third IC contains a transistors-structure (TAT and single) and analog cells placed side-by-side, block components (Comparator and Folded-cascode OTA) of the Sigma-Delta modulator.

Breadcrumbs: location and context aware mobile platform for story sharing

With the current proliferation of sensor equipped mobile devices such as smartphones and tablets, location aware services are expanding beyond the mere efficiency and work related needs of users, evolving in order to incorporate fun, culture and the social life of users. Today people on the move have more and more connectivity and are expected to be able to communicate with their usual and familiar social networks. That means communications not only with their peers and colleagues, friends and family but also with unknown people that might share their interests, curiosities or happen to use the same social network. Through social networks, location aware blogging, cultural mobile applications relevant information is now available at specific geographical locations and open to feedback and conversations among friends as well as strangers. In fact, nowadays smartphone technologies aloud users to post and retrieve content while on the move, often relating to specific physical landmarks or locations, engaging and being engaged in conversations with strangers as much as their own social network. The use of such technologies and applications while on the move can often lead people to serendipitous discoveries and interactions. Throughout our thesis we are engaging on a two folded investigation: how can we foster and support serendipitous discoveries and what are the best interfaces for it? In fact, to read and write content while on the move is a cognitively intensive task. While the map serves the function of orienting the user, it also absorbs most of the user’s concentration. In order to address this kind of cognitive overload issue with Breadcrumbs we propose a 360 degrees interface that enables the user to find content around them by means of scanning the surrounding space with the mobile device. By using a loose metaphor of a periscope, harnessing the power of the smartphone sensors we designed an interactive interface capable of detecting content around the users and display it in the form of 2 dimensional bubbles which diameter depends on their distance from the users. Users will navigate the space in relation to the content that they are curious about, rather than in relation to the traditional geographical map. Through this model we envisage alleviating a certain cognitive overload generated by having to continuously confront a two dimensional map with the real three dimensional space surrounding the user, but also use the content as a navigational filter. Furthermore this alternative mean of navigating space might bring serendipitous discovery about places that user where not aware of or intending to reach. We hence conclude our thesis with the evaluation of the Breadcrumbs application and the comparison of the 360 degrees interface with a traditional 2 dimensional map displayed on the devise screen. Results from the evaluation are compiled in findings and insights for future use in designing and developing context aware mobile applications.

A microestrutura e o desenvolvimento dos órgãos genitais masculinos de preás (Galea spixii) criados em cativeiro

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Morphology of glandular stomach (Ventriculus glandularis) and muscular stomach (Ventriculus muscularis) of the partrigde Rhynchotus rufescens

Vinte perdizes Rhynchotus rufescens adultas foram utilizadas para estudo morfológico do proventrículo e ventrículo gástricos da perdiz Rhynchotus rufescens. Os materiais foram coletados e os comprimentos do proventrículo e do ventrículo gástricos foram avaliados. Para o estudo histológico, fragmentos dos estômagos foram corados pelas técnicas de ácido periódico de Schiff (PAS) e tricromo de Masson. O proventrículo gástrico é alongado, com formato fusiforme direcionado no sentido craniocaudalmente e para a esquerda, e apresenta um comprimento médio 3,20cm nas fêmeas e 3,65cm nos machos. Histologicamente, o proventrículo gástrico é composto por vários lobos e glândulas. A mucosa é formada por epitélio cúbico, sendo bastante pregueada. O ventrículo gástrico tem o formato de uma lente biconvexa, com comprimento médio de 4,30cm nas fêmeas e 4,35cm nos machos. A mucosa é formada por pregas revestidas por células cilíndricas e pelo muco formador da cutícula. Há criptas na base das pregas. em seguida, há uma lâmina própria e uma espessa camada muscular lisa, que se encontra direcionada de acordo com o formato do ventrículo gástrico. A serosa é constituída por uma densa porção de tecido conjuntivo, entremeado por algumas células musculares lisas.

Morfologia e morfometria do oviduto de codornas Nothura maculosa

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Manutenção da umidade do substrato durante o teste de germinação de Brachiaria brizantha

Para avaliar procedimentos para a manutenção da umidade do substrato durante o teste de germinação de Brachiaria brizantha. Estudou-se o efeito da posição das caixas plásticas na câmara de germinação sobre a perda de água semanal, testando-se nove posições verticais (bandejas) e três posições horizontais (porta, meio e fundo do germinador). Foi também avaliado o efeito de procedimentos para manter a umidade do substrato, sobre a germinação, a perda de água semanal e o tempo despendido para a instalação do teste. Os procedimentos testados foram: (a) vedação da caixa plástica com vaselina, (b) vedação com saco plástico dobrado em quatro e colocado entre a tampa e a caixa, (c) colocação da caixa tampada dentro de saco plástico, (d) espuma sob o papel de germinação e (e) testemunha, caixa apenas tampada. Concluiu-se que a câmara de germinação promove a desidratação desigual do substrato conforme a posição das caixas; aquelas localizadas na primeira bandeja superior são as mais prejudicadas. Entre os procedimentos, a vedação com vaselina, a colocação da caixa dentro de saco plástico e a vedação com saco plástico dobrado em quatro entre a tampa e a caixa são eficientes na manutenção da umidade do substrato em taxas que não alteram os resultados do teste de germinação de B. brizantha; os dois últimos procedimentos são os mais rápidos e práticos, adaptando-se à rotina de um laboratório de análise de sementes.

Novel active and passive anti-vibration mountings

This paper investigates a novel design approach for a vibration isolator for use in space structures. The approach used can particularly be applicable for aerospace structures that support high precision instrumentation such as satellite payloads. The isolator is a space-frame structure that is folded in on itself to act as a mechanical filter over a defined frequency range. The absence of viscoelastic elements in such a mounting makes the design suitable for use in a vacuum and in high temperature or harsh environments with no risk of drift in alignment of the structure. The design uses a genetic algorithm based geometric optimisation routine to maximise passive vibration isolation, and this is hybridised with a geometric feasibility search. To complement the passive isolation system, an active system is incorporated in the design to add damping. Experimental work to validate the feasibility of the approach is also presented, with the active/passive structure achieving transmissibility of about 19 dB over a range of 1-250 Hz. It is shown here that the use of these novel anti-vibration mountings has no or little consequent weight and cost penalties whilst maintaining their effectiveness with the vibration levels. The approach should pave the way for the design of anti-vibration mountings that can be used between most pieces of equipment and their supporting structure. Crown Copyright (C) 2011 Published by Elsevier Ltd. All rights reserved.

Petrologia dos granitóides brasilianos associados à zona de cisalhamento Remígio-Pocinhos(PB)

The Brasiliano Cycle in the Seridó Belt (NE Brazil) is regarded mostly as a crustal reworking event, characterized by transcurrent or transpressional shear zones which operated under high temperature and low pressure conditions. In the eastern domain of this belt- the so-called São José de Campestre Massif (SJCM), a transtensional deformation regime is evidenced by extensional components or structures associated to the strikeslip shear zones. The emplacement of the Neoproterozoic Brasiliano granitoids is strongly controled by these discontinuities. Located in the southern border of the SJCM, the Remígio-Pocinhos shear zone (RPSZ) displays, in its northern half, top to the SW extensional movement which progressively grade, towards its southern half, to a dextral strike-slip kinematics, defining a negative semi-flower structure. This shear zone is overprinted upon allocthonous metasediments of the Seridó Group and an older gneiss-migmatite complex, both of which containing metamorphic parageneses from high amphibolite to granulite facies (the latter restricted to the strike-slip zone), defining the peak conditions of deformation. Several granitoid plutons are found along this structure, emplaced coeval with the shearing event. Individually, such bodies do not exceed 30 km2 in outcropping area and are essentially parallel to the trend of the shear zone. Petrographic, textural and geochemical data allow to recognize five different granitoid suites along the RPSZ: porphyritic granites (Serra da Boa Vista and Jandaíra), alkaline granites (Serra do Algodão and Serra do Boqueirão) and medium to coarse-grained granites (Olivedos) as major plutons, while microgranite and aluminous leucogranite sheets occur as minor intrusions. The porphyritic granites are surrounded by metasediments and present sigmoidal or en cornue shapes parallel to the trend of the RPSZ, corroborating the dextral kinematics. Basic to intermediate igneous enclaves are commonly associated to these bodies, frequently displaying mingling textures with the host granitoids. Compositionally these plutons are made up by titanite-biotite monzogranites bearing amphibole and magnetite; they are peraluminous and show affinities to the monzonitic, subalkaline series. Peraluminous, ilmenite-bearing biotite monzogranites and titanite-biotite monzogranites correspond, respectivally, to the Olivedos pluton and the microgranites. The Olivedos body is hosted by metasediments, while the microgranites intrude the gneiss-migmatite complex. Being highly evolved rocks, samples from these granites plot in the crustal melt fields in discrimination diagrams. Nevertheless, their subtle alignment also looks consistent with a monzonitic, subalkaline affinity. These chemical parameters make them closer to the I-type granites. Alkaline, clearly syntectonic granites are also recognized along the RPSZ. The Serra do Algodão and Serra do Boqueirão bodies display elongated shapes parallel to the mylonite belt which runs between the northern, extensional domain and the southern strike-slip zone. The Serra do Algodão pluton shows a characteristic isoclinal fold shape structure. Compositionally they encompass aegirine-augite alkali-feldspar granites and quartz-bearing alkaline syenite bearing garnet (andradite) and magnetite plus ilmenite as opaque phases. These rocks vary from meta to peraluminous, being correlated to the A-type granites. Aluminous leucogranites bearing biotite + muscovite ± sillimanite ± garnet (S-type granites) are frequent but not volumetrically important along the RPSZ. These sheet-like bodies may be folded or boudinaged, representing partial melts extracted from the metasediments during the shear zone development. Whole-rock Rb-Sr isotope studies point to a minimum 554��10 Ma age for the crystalization of the porphyritic granites. The alkaline granites and the Olivedos granite produced ca. 530 Ma isochrons which look too young; such values probably represent the closure of the Rb-Sr radiometric clock after crystallization and deformation of the plutons, at least 575 Ma ago (Souza et al. 1998). The porphyritic and the alkaline granites crystallized under high oxygen fugacity conditions, as shown by the presence of both magnetite and hematite in these rocks. The presence of ilmenite in the Olivedos pluton suggests less oxidizing conditions. Amphibole and amphibole-plagioclase thermobarometers point to minimum conditions, around 750°C and 6 Kbars, for the crystallization of the porphyritic granites. The zirconium geothermometer indicates higher temperatures, in the order of 800°C, for the porphyritic granites, and 780°C for the Olivedos pluton. Such values agree with the thermobarometric data optained for the country rocks (5,7 Kbar and 765°C; Souza et al. 1998). The geochemical and isotope data set point to a lower crustal source for the porphyritic and the alkaline granites. Granulite facies quartz diorite to tonalite gneisses, belonging or akin to the gneiss-migmatite complex, probably dominate in the source regions. In the case of the alkaline rocks, subordinate contributions of mantle material may be present either as a mixing magma or as a previously added component to the source region. Tonalite to granodiorite gneisses, with some metasedimentary contribution, may be envisaged for the Olivedos granite. The diversity of granitoid rocks along the RPSZ is explained by its lithospheric dimension, allowing magma extraction at different levels, from the middle to lower crust down to the mantle. The presence of basic to intermediate enclaves, associated to the porphyritic granites, confirm the participation of mantle components in the magma extraction system along the RPSZ. This mega-structure is part of the network of Brasiliano-age shear zones, activated by continental collision and terrane welding processes at the end of the Neoproterozoic

Mecanismos de alojamento de magmas granitóides :exemplo do plúton de Japi(RN)

This dissertation describes the igneous suites of the Japi granitoid pluton, intrusive in the Paleoproterozoic gneiss-migmatite complex of the eastern domain of the Seridó Belt, northeastern Brazil. Field relations show that the pluton is affected by strong deformation associated to the Brasiliano orogeny (known as the D3 phase) , with a NW-trending extensionalleft-hand senestral shear zone (the Japi Shear Zone, JSZ) bordering the intrusive body to the west. Four plutonic suites are found in the main pluton and as satellyte intrusions, besides Iate pegmatite and pink leucogranites. An alkaline granitoid suite, dominated by syenogranites bearing sodic augite (and subordinate hornblende), define a main elliptical intrusion. In its northern part, this intrusion is made up by concentric sheets, contrasting with a smaller rounded stock to the south. These granites display a pervasive solid-state S>L fabric developed under high T conditions, characterized by plastic deformation of quartz and feldspar. It is especially, developed along the border of the pluton, with inward dips. A regular magmatic layering is present sometimes, parallel to the tectonic foliation. The syntectonic emplacement as regards to the Brasiliano (D3) event is indicated by the common occurrence of dykes and sheets along transtensional or extensional sites of the major structure. Field relations attest to the early emplacement of the alkaline granites as regards to the other suites. A basic-to-intermediate suite occurs as a western satellyte body and occupying the southern tail of the main alkaline pluton. It comprises a wide variety of compositional terms, including primitive gabbros and gabbro-norites, differentiated to monzonitic intermediate facies containing amphibole and biotite as their main mafic phases. These rocks display transitional high-K calc-alkaline to shoshonitic affinities. Porphyritic monzogranite suítes commonly occur as dykes and minor intrusives, isolated or associated with the basic-tointermediate rocks. In the latter case, magma mingling and mixing features attest that these are contemporaneous igneous suites. These granites show K-feldspar phenocrysts and a hornblende+biotite+titanite assemblage, displaying subalkaline/monzonitic geochemical affinities. Both suites exhibit SL magmatic fabrics overprinting or transitional to solid-state D3 deformation related to the JSI. Chemical data clearly show that they are related to different parental magmas. Finally, a microgranite suite occurs along a few topographic ridges paralell to the JSI. It comprises dominantly granodiorites with a mineralogy similar to the one of the porphyritic granitoids. However, discriminant diagrams show their distinct calc-alkaline affinity. The granodiorites display an essencially magmatic fabric, even though an incipient D3 solid-state structure may be developed along the JSI. Intrusion relationships with the previous suites, as well as regards to the D3 structures, point to their Iate emplacement. All these suites are intrusive in a Paleoproterozoic, high-grade gneiss-migmatite complex affected by two previous deformation phases (D1, D2). The fabrics associated with these earlier events are folded and overprinted by the younger D3 structures along the JSZ. The younger deformation is characterized by NE-dipping foliations and N/NE-plunging stretching lineations. In the JSZ northern termination the foliation acquires an ENE orientation, containing a stretching lineation plunging to the south. Symmetric kinematic cri teria developed at this site confirms the transpressional termination of the JSZ, as also shown by orthorrombic quartz c-axis patterns. E-W-trending d extra I shear zones developed in the central part of the JSZ are interpreted as antithetic structures associated to the transtensional deformation along the JSZ. This is consistent with its extensional-transcurrent kinematics and a flat-and-ramp geometry at depth, as shown by gravimetric data. The lateral displacement of the negative residual Bouguer anomalies, as regards to the main outcropping alkaline pluton, may be modelized by other deeper-seated granite bodies. Based on numerical modelling it was possible to infer two distinct intrusion styles for the alkaline pluton. The calculated model values are consistent with an emplacement by sheeting for the northern body, as already suggested by satellyte imagery and field mapping. On the other hand, the results point to a transition towards a diapir-related style associated to the smaller. southern stock. This difference in intrusion styles may relate to intensity variations and transtensional sites of the shear deformation along the JSZ. Trace element and Sr and Nd isotopes of the alkaline granites are compatible with their derivation trom a more basic crustal source, as compared to the presently outcropping highgrade gneisses, with participation (or alternatively dominated by) of an enriched lithospheric mantle component. Like other igneous suites in the Seridó Belt, the high LlL contents and fractionated REE patterns of the basic rocks also point to an enriched mantle as the source for this kind of magmatism. Geochemical and isotope data are compatible with a lower crustal origin for the porphyritic granites. On the basis of the strong control of the JSZ on the emplacement of lower crustal (porphyritic and alkaline granites) or lithospheric mantle (basic rocks, alkaline granites or a component of them) magmas, one may infer a deep root for this structure, bearing an important role in magma extraction, transport and emplacement in the Japi region, eastern domain of the Seridó Belt

Evaluation of toothbrush bristles' deterioration used by preschool children

The toothbrush is an effective instrument for oral diseases prevention. The flexibility and status of bristles, as well as the size of the handle are fundamental for an effective toothbrushing. Thus, the assessment of physical characteristics of toothbrushes is important. This study evaluated the deterioration and wear of bristles of toothbrushes used by preschool children. For the sample selection, five elementary schools were assorted from a city of the São Paulo State northwest region, one from each city area. All toothbrushes used by preschool children who aged between 5 and 6 years old and who attended the assorted schools were visually analysed by two calibrated examiners, according to the criteria proposed by Rawls HR, Mkwayi-Tulloch NJ, Casella R, Cosgrove R (J Dent Res 1989; 12: 1781): 0 - it is impossible to state if the toothbrush was used or not; 1 - the bristles seem to be separated within some tufts; 2 - most tufts are separated, many cover other tufts and present a large number of curved and inclined bristles; 3 - most tufts are covered by others and bristles are folded and tipped. In total, 333 toothbrushes were evaluated. The data obtained revealed that 57.96% of the toothbrushes presented adequate condition for utilization (scores 0 and 1), whereas 42.04% presented inadequate bristles for their function (scores 2 and 3). It was concluded that a great number of toothbrushes presented deterioration of the bristles. Thus, there is the need to guide and promote awareness among teachers, parents and children as well as the need to replace toothbrushes.

DNA and heparin chaperone the refolding of purified recombinant replication protein A subunit 1 from Leishmania amazonensis

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Comparative morphology of the seminal receptacles of Ocypode quadrata (Fabricius, 1787) (Brachyura, Ocypodoidea)

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)