Phylogenetic and structural studies of a novel equine papillomavirus identified from aural plaques

Papillomaviruses (PVs) infect a wide range of animal species and show great genetic diversity. To date, excluding equine sarcoids, only three species of PVs were identified associated with lesions in horses: Equus caballus papillomavirus 1 (EcPV1-cutaneous), EcPV2 (genital) and EcPV3 (aural plaques). In this study, we identified a novel equine PV from aural plaques, which we designated EcPV4. Cutaneous samples from horses with lesions that were microscopically diagnosed as aural plaques were subjected to DNA extraction, amplification and sequencing. Rolling circle amplification and inverse PCR with specific primers confirmed the presence of an approximately 8. kb circular genome. The full-length EcPV4 L1 major capsid protein sequence has 1488 nucleotides (495 amino acids). EcPV4 had a sequence identity of only 53.3%, 60.2% and 51.7% when compared with the published sequences for EcPV1, EcPV2 and EcPV3, respectively. A Bayesian phylogenetic analysis indicated that EcPV4 clusters with EcPV2, but not with EcPV1 and EcPV3. Using the current PV classification system that is based on the nucleotide sequence of L1, we could not define the genus of the newly identified virus. Therefore, a structural analysis of the L1 protein was carried out to aid in this classification because EcPV4 cause lesion similar to the lesion caused by EcPV3. A comparison of the superficial loops demonstrated a distinct amino acid conservation pattern between EcPV4/EcPV2 and EcPV4/EcPV3. These results demonstrate the presence of a new equine PV species and that structural studies could be useful in the classification of PVs. © 2012 Elsevier B.V.

Development and Biotechnological Application of a Novel Endoxylanase Family GH10 Identified from Sugarcane Soil Metagenome

Metagenomics has been widely employed for discovery of new enzymes and pathways to conversion of lignocellulosic biomass to fuels and chemicals. In this context, the present study reports the isolation, recombinant expression, biochemical and structural characterization of a novel endoxylanase family GH10 (SCXyl) identified from sugarcane soil metagenome. The recombinant SCXyl was highly active against xylan from beechwood and showed optimal enzyme activity at pH 6,0 and 45°C. The crystal structure was solved at 2.75 Å resolution, revealing the classical (β/α)8-barrel fold with a conserved active-site pocket and an inherent flexibility of the Trp281-Arg291 loop that can adopt distinct conformational states depending on substrate binding. The capillary electrophoresis analysis of degradation products evidenced that the enzyme displays unusual capacity to degrade small xylooligosaccharides, such as xylotriose, which is consistent to the hydrophobic contacts at the +1 subsite and low-binding energies of subsites that are distant from the site of hydrolysis. The main reaction products from xylan polymers and phosphoric acid-pretreated sugarcane bagasse (PASB) were xylooligosaccharides, but, after a longer incubation time, xylobiose and xylose were also formed. Moreover, the use of SCXyl as pre-treatment step of PASB, prior to the addition of commercial cellulolytic cocktail, significantly enhanced the saccharification process. All these characteristics demonstrate the advantageous application of this enzyme in several biotechnological processes in food and feed industry and also in the enzymatic pretreatment of biomass for feedstock and ethanol production. © 2013 Alvarez et al.

Hispanic poverty from the current population survey and poverty of other self-identified ethnic groups from census information

Includes bibliography

Mudanças na prática docente no ensino de física: espaços, tempos e movimentos de experiências vividas por uma professora

Este trabalho consiste de uma pesquisa narrativa autobiográfica em que realizei uma investigação sobre mudança na minha prática docente, a partir da seguinte questão norteadora: Que contribuições para a mudança na prática docente podem emergir de experiências vividas no contexto da docência de uma professora de Física no Ensino Médio? O estudo foi realizado com base em quatro experiências vividas na atuação docente: no Projeto Pré-Vestibular Solidário (PPVS), em uma escola da rede particular, em duas escolas da rede pública de ensino em Santarém-PA, e na prática pedagógica com o Ensino de Física Através de Temas (EFAT), a qual foi realizada em uma escola da rede estadual de ensino em Ananindeua-PA. Esta última experiência consistiu de um trabalho em cooperação com a professora praticante responsável pela turma de 32 ano noturno, em que foi realizada a prática. Como material de análise fiz uso das memórias de docência das três primeiras experiências e registros construídos a partir da experiência com o EFAT por meio de diários de aula produzidos por mim e pela professora praticante, relatos e depoimentos dos estudantes, além de entrevista com a professora. Interagi com esses materiais de análise no sentido de construir compreensões sobre o processo de mudança em minha prática, na perspectiva dos professores como agentes de mudança educacional, segundo Goodson (2008a, 2008b) e Fullan (2009), e trato de mudanças nas crenças e valores pessoais. Das análises construídas identifiquei como elementos de mudança: rupturas/reconstruções de modelos e concepções de processo ensino-aprendizagem, ser docente, ciência, conhecimento científico e dimensões formativas decorrentes do aprendizado em Física; os desafios referentes a complexidade do cotidiano na sala de aula, as incertezas da prática, a construção de uma relação dialógica com os estudantes, promover a motivação para o processo ensino-aprendizagem em Física, a busca da aprendizagem contínua, reconstrução do papel de professora e estudantes no processo ensino-aprendizagem, desenvolver a prática compartilhada, as dificuldades das condições de produção docente; a interação decorrente das trocas com colegas professores, e estudantes, que propiciaram a construção coletiva e compartilhada da prática, a construção de valores e atitudes como a confiança, receptividade, a flexibilidade; e o movimento interno que diz respeito a inquietação, insatisfação, o conflito relacionados aos modos de condução da prática docente, o olhar constante para si, além das crenças na mudança. Das análises realizadas concluo que a mudança na minha prática docente no ensino de Física tem relação com o modo como enfrentei os conflitos decorrentes dos distanciamentos entre a formação e atuação docente, uma vez que no decurso da formação são construídos modelos e concepções de ciência, docência, processo ensino-aprendizagem, dentre outros que se distanciam do fazer cotidiano nos contextos de atuação e que por vezes necessitam ser reconstruídos. Assim, a mudança na minha prática docente envolveu múltiplas dimensões, aprendizados contínuos, abertura ao diálogo, flexibilidade para construir e reconstruir crenças e valores, modos de ser e agir na docência.

Concepções dos estudos de usuários na visão dos professores dos cursos de Biblioteconomia brasileiros

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Genomic divergence of zebu and taurine cattle identified through high-density SNP genotyping

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

Desenvolvimento de uma aplicação para suporte ao t-learning

Pós-graduação em Televisão Digital: Informação e Conhecimento - FAAC

Estratégias de leitura: relações entre as concepções do material Linguagens, Códigos e suas tecnologias: língua portuguesa e a prática docente

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Nonlinear features identified by Volterra series for damage detection in a buckled beam

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

A Porpoise, Australophocaena dioptrica, Previously Identified As Phocoena spinipinnis, From Heard Island

Guiler, Burton and Gales (1987) reported a cranium (Tasmanian Museum No. A141 1) they identified as belonging to Burmeister’s porpoise, Phocoena spinipinnis Burmeister, 1865 from Heard Island (53°S 73°30’E). They noted that P. spinipinnis was previously known only from the cold-temperate coastal waters of South America and claimed that this cranium was evidence that the species has a much wider distribution than previously known. We have examined the photographs and details of their specimen and re-identify it here as Australophocaena dioptrica (Lahille, 1912) (family Phocoenidae). Barnes (1985) listed several features that distinguish the skulls of species within the subfamily Phocoenoidinae (including A. dioptrica) from those species within the Phocoeninae (including Phocoena spp.). Features that distinguish A. dioptrica from P. spinipinnis, dearly visible in the published photographs of the cranium from Heard Island, include: a relatively small, oval-shaped temporal fossa; an elevated, high-vaulted braincase that slopes abruptly onto the narial region; relatively large, high and convex premaxillary bosses; dorso-ventrally expanded zygomatic process of the squamosal; short and antetoposteriorly expanded postorbital process of the fronds; and maxillae extendmg nearly to the dorsal margin of the supraoccipital on the top of the skull. In all these features, the Heard Island specimen conforms with those of A. dioptrica. Crania of A. dioptrica have been illustrated by Hamilton (1941), Norris and McFarland (1958), Brownell (1975), Fordyce et al. (1984), and Barnes (1985). Crania of P. spinipinnis have been illustrated by Norris and McFarland (1958) and Brownell and Praderi (1984).

Identified Hadron Compositions in p plus p and Au plus Au Collisions at High Transverse Momenta at root s(NN)=200 GeV

We report transverse momentum (p(T) <= 15 GeV/c) spectra of pi(+/-), K-+/-, p, (p) over bar, K-0(S), and rho(0) at midrapidity in p + p and Au + Au collisions at root s(NN) = 200 GeV. Perturbative QCD calculations are consistent with pi(+/-) spectra in p + p collisions but do not reproduce K and p((p) over bar) spectra. The observed decreasing antiparticle-to-particle ratios with increasing p(T) provide experimental evidence for varying quark and gluon jet contributions to high-p(T) hadron yields. The relative hadron abundances in Au + Au at p(T) >= 8 GeV/c are measured to be similar to the p + p results, despite the expected Casimir effect for parton energy loss.

Lepstospira interrogans shotgun phage display identified LigB as a heparin-binding protein

LigB is an adhesin from pathogenic Leptospira that is able to bind to extracellular matrix and is considered a virulence factor. A shotgun phage display genomic library was constructed and used for panning against Heparan Sulfate Proteoglycan (HSPG). A phage clone encoding part of LigB protein was selected in panning experiments and showed specific binding to heparin. To validate the selected clone, fragments of LigB were produced as recombinant proteins and showed affinity to heparin and to mammalian cells. Heparin was also able to reduce the binding of rLB-Ct to mammalian cells. Our data suggests that the glycosaminoglycan moiety of the HSPG is responsible for its binding and could mediate the attachment of the recombinant protein rLB-Ct. Thus, heparin may act as a receptor for Leptospira to colonize and to invade the host tissue. (C) 2012 Elsevier Inc. All rights reserved.

Peptide fingerprinting of the neurotoxic fractions isolated from the secretions of sea anemones Stichodactyla helianthus and Bunodosoma granulifera. New members of the APETx-like family identified by a 454 pyrosequencing approach

Sea anemones are known to contain a wide diversity of biologically active peptides, mostly unexplored according to recent peptidomic and transcriptomic studies. In the present work, the neurotoxic fractions from the exudates of Stichodactyla helianthus and Bunodosoma granulifera were analyzed by reversed-phase chromatography and mass spectrometry. The first peptide fingerprints of these sea anemones were assessed, revealing the largest number of peptide components (156) so far found in sea anemone species, as well as the richer peptide diversity of B. granulifera in relation to S. helianthus. The transcriptomic analysis of B. granulifera, performed by massive cDNA sequencing with 454 pyrosequencing approach allowed the discovery of five new APETx-like peptides (U-AITX-Bg1a-e - including the full sequences of their precursors for four of them), which together with type 1 sea anemone sodium channel toxins constitute a very distinguishable feature of studied sea anemone species belonging to genus Bunodosoma. The molecular modeling of these new APETx-like peptides showed a distribution of positively charged and aromatic residues in putative contact surfaces as observed in other animal toxins. On the other hand, they also showed variable electrostatic potentials, thus suggesting a docking onto their targeted channels in different spatial orientations. Moreover several crab paralyzing toxins (other than U-AITX-Bg1a-e), which induce a variety of symptoms in crabs, were isolated. Some of them presumably belong to new classes of crab-paralyzing peptide toxins, especially those with molecular masses below 2 kDa, which represent the smallest peptide toxins found in sea anemones. (C) 2011 Elsevier Inc. All rights reserved.

Incidental mild hyperglycemia in children: two MODY 2 families identified in Brazilian subjects

Maturity-onset diabetes of the young (MODY) is characterized by an autosomal dominant mode of inheritance, early onset of hyperglycemia, and defects of insulin secretion. MODY subtypes described present genetic, metabolic, and clinical differences. MODY 2 is characterized by mild asymptomatic fasting hyperglycemia, and rarely requires pharmacological treatment. Hence, precise diagnosis of MODY is important for determining management and prognosis. We report two heterozygous GCK mutations identified during the investigation of short stature. Case 1: a prepubertal 14-year-old boy was evaluated for constitutional delay of growth and puberty. During follow-up, he showed abnormal fasting glucose (113 mg/dL), increased level of HbA1c (6.6%), and negative beta-cell antibodies. His father and two siblings also had slightly elevated blood glucose levels. The mother had normal glycemia. A GCK heterozygous missense mutation, p.Arg191Trp, was identified in the proband. Eighteen family members were screened for this mutation, and 11 had the mutation in heterozygous state. Case 2: a 4-year-old boy investigated for short stature revealed no other laboratorial alterations than elevated glycemia (118 mg/dL); beta-cell antibodies were negative. His father, a paternal aunt, and the paternal grandmother also had slightly elevated glycemia, whereas his mother had normal glycemia. A GCK heterozygous missense mutation, p.Glu221Lys, was identified in the index patient and in four family members. All affected patients had mild elevated glycemia. Individuals with normal glycemia did not harbor mutations. GCK mutation screening should be considered in patients with chronic mild early-onset hyperglycemia, family history of impaired glycemia, and negative beta-cell antibodies. Arq Bras Endocrinol Metab. 2012;56(8):519-24

Extensive cross-talk and global regulators identified from an analysis of the integrated transcriptional and signaling network in Escherichia coli

To understand the regulatory dynamics of transcription factors (TFs) and their interplay with other cellular components we have integrated transcriptional, protein-protein and the allosteric or equivalent interactions which mediate the physiological activity of TFs in Escherichia coli. To study this integrated network we computed a set of network measurements followed by principal component analysis (PCA), investigated the correlations between network structure and dynamics, and carried out a procedure for motif detection. In particular, we show that outliers identified in the integrated network based on their network properties correspond to previously characterized global transcriptional regulators. Furthermore, outliers are highly and widely expressed across conditions, thus supporting their global nature in controlling many genes in the cell. Motifs revealed that TFs not only interact physically with each other but also obtain feedback from signals delivered by signaling proteins supporting the extensive cross-talk between different types of networks. Our analysis can lead to the development of a general framework for detecting and understanding global regulatory factors in regulatory networks and reinforces the importance of integrating multiple types of interactions in underpinning the interrelationships between them.