Codon usage bias and A+T content variation in human papillomavirus genomes

We analyzed the codon usage bias of eight open reading frames (ORFs) across up to 79 human papillomavirus (HPV) genotypes from three distinct phylogenetic groups. All eight ORFs across HPV genotypes show a strong codon usage bias, amongst degenerately encoded amino acids, toward 18 codons mainly with T at the 3rd position. For all 18 degenerately encoded amino acids, codon preferences amongst human and animal PV ORFs are significantly different from those averaged across mammalian genes. Across the HPV types, the L2 ORFs show the highest codon usage bias (73.2 +/- 1.6% and the E4 ORFs the lowest (51.1 +/- 0.5%), reflecting as similar bias in codon 3rd position A + T content (L2: 76.1 +/- 4.2%; E4: 58.6 +/- 4.5%). The E4 ORF, uniquely amongst the HPV ORFs, is G + C rich, while the other ORFs are A + T rich. Codon usage bias correlates positively with A + T content at the codon 3rd position in the E2, E6, L1 and L2 ORFs, but negatively in the E4 ORFs. A general conservation of preferred codon usage across human and non-human PV genotypes whether they originate from a same supergroup or not, together with observed difference between the preferred codon usage for HPV ORFs and for genes of the cells they infect, suggests that specific codon usage bias and A + T content variation may somehow increase the replicational fitness of HPVs in mammalian epithelial cells, and have practical implications for gene therapy of HPV infection. (C) 2003 Elsevier B.V. All rights reserved.

Usefulness of quantitative echocardiographic techniques to predict recovery of regional and global left ventricular function after acute myocardial infarction

The left ventricular response to dobutamine may be quantified using tissue Doppler measurement of myocardial velocity or displacement or 3-dimensional echocardiography to measure ventricular volume and ejection fraction. This study sought to explore the accuracy of these methods for predicting segmental and global responses to therapy. Standard dobutamine and 3-dimensional echocardiography were performed in 92 consecutive patients with abnormal left ventricular function at rest. Recovery of function was defined by comparison with follow-up echocardiography at rest 5 months later. Segments that showed improved regional function at follow-up showed a higher increment in peak tissue Doppler velocity with dobutamine therapy than in nonviable segments (1.2 +/- 0.4 vs 0.3 +/- 0.2 cm/s, p = 0.001). Similarly, patients who showed a > 5% improvement of ejection fraction at follow-up showed a greater displacement response to dobutamine (6.9 +/- 3.2 vs 2.1 +/- 2.3 mm, p = 0.001), as well as a higher rate of ejection fraction, response to dobutamine (9 +/- 3% vs 2 +/- 2%, p = 0.001). The optimal cutoff values for predicting subsequent recovery of function at rest were an increment of peak velocity > 1 cm/s, >5 mm of displacement, and a >5% improvement of ejection fraction with low-dose dobutamine. (C) 2003 by Excerpta Medica, Inc.

Environmental conditions and variation in levels of sun exposure among children in child care

Sun exposure in childhood is I of the risk factors for developing skin cancer, yet little is known about levels of exposure at this age. This is particularly important in countries with high levels of ultraviolet radiation. (UVR) such as Australia. Among 49 children 3 to 5 years of age attending child care centers, UVR exposure was studied under 4 conditions in a repeated measures design; sunny days, cloudy days, teacher's instruction to stay in the shade, and a health professionals instruction to apply sunscreen. Three different data collection methods were employed: (a) completion of questionnaire or diary by parents and researcher, (b) polysulphone dosimeter readings, and (c) observational audits (video recording). Results of this study indicated that more than half the children had been sunburnt (pink or red) and more than a third had experienced painful sunburn (sore or tender) in the last summer. Most wore short sleeve shirts, short skirts or shorts and cap, that do not provide optimal levels of skin protection. However, sunscreen was applied to all exposed parts before the children went out to the playground. Over the period of I hr (9-10 a.m.) the average amount of time children spent in full sun was 22 min. On sunny days there was more variation across children in the amount of sun exposure received. While the potential amount of UVR exposure for young children during the hour they were outside on a sunny day was 1.45 MED (Minimum Erythemal Dose), they received on average 0.35 MED, which is an insufficient amount to result in an erythemal response on fair skin even without the use of sunscreen.

Genetic structure of Mycosphaerella fijiensis populations from Australia, Papua New Guinea and the Pacific Islands

Single-copy restriction fragment length polymorphism (RFLP) markers were used to determine the genetic structure of Mycosphaerella fijiensis, the cause of black leaf streak (black Sigatoka) disease of banana and plantain, in the Torres Strait, Papua New Guinea (PNG), and the Pacific Islands. A moderate level of genetic variation was observed in all populations with genotypic diversity values of 60-78% of the theoretical maximum, and gene diversity (H) values between 0.269 and 0.336. All populations were at gametic equilibrium, and with the high level of genotypic diversity observed this indicated that sexual reproduction has a major role in the genetic structure of the M. fijiensis populations examined. Population differentiation was tested on several hierarchical scales. No evidence of population differentiation was observed between sites on Mer Island. A moderate level of population differentiation was observed within the Torres Strait, between Badu and Mer Islands (F-ST = 0.097). On a regional scale, the greatest differentiation was found between the populations of the Torres Strait and the Pacific. Populations from these regions were more closely related to the PNG population than to each other, suggesting they were founded in separate events from the same population.

Variation of the crystalline structure of coal char during gasification

The variation of the crystallite structure of several coal chars during gasification in air and carbon dioxide was studied by high-resolution transmission electron microscopy (HRTEM) and X-ray diffraction (XRD) techniques. The XRD analysis of the partially gasified coal chars, based on two approaches, Scherrer's equation and Alexander and Sommer's method, shows a contradictory trend of the variation of the crystallite height with carbon conversion, despite giving a similar trend for the crystallite width change. The HRTEM fringe images of the partially gasified coal chars indicate that large and highly ordered crystallites exist at conversion levels as high as 86%. It is also demonstrated that the crystalline structure of chars can be very different although their pore structures are similar, suggesting a combination of crystalline structure analysis with pore structure analysis in studies of carbon gasification.

Genetic characterization of pilin glycosylation and phase variation in Neisseria meningitidis

Pili of Neisseria meningitidis are a key virulence factor, being the major adhesin of this capsulate organism and contributing to specificity for the human host. Pili are post-translationally modified by addition of either an O-linked trisaccharide, Gal (beta1-4) Gal (alpha1-3) 2,4-diacetamido-2,4,6-trideoxyhexose or an O-linked disaccharide Gal (alpha1,3) GlcNAc. The role of these structures in meningococcal pathogenesis has not been resolved. In previous studies we identified two separate genetic loci, pglA and pglBCD, involved in pilin glycosylation. Putative functions have been allocated to these genes; however, there are not enough genes to account for the complete biosynthesis of the described structures, suggesting additional genes remain to be identified. In addition, it is not known why some strains express the trisaccharide structure and some the disaccharide structure. In order to find additional genes involved in the biosynthesis. of these structures, we used the recently published group A strain Z2491 and group B strain MC58 Neisseria meningitidis genomes and the unfinished Neisseria meningitidis group C strain FAM18 and Neisseria gonorrhoeae strain FA1090 genomes to identify novel genes involved in pilin glycosylation, based on homology to known oligosaccharide biosynthetic genes. We identified a new gene involved in pilin glycosylation designated pglE and examined four additional genes pgIB/B2, pglF, pglG and pglH. A strain survey revealed that pglE and pglF were present in each strain examined. The pglG, pglH and pgIB2 polymorphisms were not found in strain C311#3 but were present in a large number of clinical isolates. Insertional mutations were constructed in pglE and pglF in N. meningitidis strain C311#3, a strain with well-defined lipopolysaccharide (LPS) and pilin-linked glycan structures. Increased gel migration of the pilin subunit molecules of pglE and pglF mutants was observed by Western analysis, indicating truncation of the trisaccharide structure. Antisera specific for the C311#3 trisaccharide failed to react with pilin from these pglE and pglF mutants. GC-MS analysis of the sugar composition of the pglE mutant showed a reduction in galactose compared with C311#3 wild type. Analysis of amino acid sequence homologies has suggested specific roles for pglE and pglF in the biosynthesis of the trisaccharide structure. Further, we present evidence that pglE, which contains heptanucleotide repeats, is responsible for the phase variation between trisaccharide and disaccharide structures in strain C311#3 and other strains. We also present evidence that pglG, pglH and pgIB2 are potentially phase variable.

Variation of the pore structure of coal chars during gasification

The variation of the pore structure of several coal chars during gasification in air and carbon dioxide was studied by argon adsorption at 87 K and CO2 adsorption at 273 K. It is found that the surface area and volume of the small pores (10 Å for air gasification is constant over a wide range of conversion (>20%), while for CO2 gasification similar results are obtained using the total surface area. However, in the early stages of gasification (

Measuring the accumulated hazards of smoking: global and regional estimates for 2000

Objective: Current prevalence of smoking, even where data are available, is a poor proxy for cumulative hazards of smoking, which depend on several factors including the age at which smoking began, duration of smoking, number of cigarettes smoked per day, degree of inhalation, and cigarette characteristics such as tar and nicotine content or filter type. Methods: We extended the Peto-Lopez smoking impact ratio method to estimate accumulated hazards of smoking for different regions of the world. Lung cancer mortality data were obtained from the Global Burden of Disease mortality database. The American Cancer Society Cancer Prevention Study, phase 11 (CPS-II) with follow up for the years 1982 to 1988 was the reference population. For the global application of the method, never-smoker lung cancer mortality rates were chosen based on the estimated use of coal for household energy in each region. Results: Men in industrialised countries of Europe, North America, and the Western Pacific had the largest accumulated hazards of smoking. Young and middle age males in many regions of the developing world also had large smoking risks. The accumulated hazards of smoking for women were highest in North America followed by Europe. Conclusions: In the absence of detailed data on smoking prevalence and history, lung cancer mortality provides a robust indicator of the accumulated hazards of smoking. These hazards in developing countries are currently more concentrated among young and middle aged males.

Treinamento de ger??ncia regional

s Secretarias Estaduais de Sa??de (SES) t??m tido dificuldade de cumprir o seu papel, principalmente no que se refere ??s medidas que eram antes conduzidas pelo antigo INAMPS. A solu????o para o problema foi encontrada no Treinamento de Ger??ncia Regional, destinado a capacitar os t??cnicos das diretorias regionais de sa??de ??? DIRES, da Secretaria Estadual de Sa??de de S??o Paulo e das Secretarias de Sa??de dos munic??pios em gest??o semiplena, para o desenvolvimento de atividades de avalia????o e controle, em n??vel regional, e para apoiar a implementa????o destas atividades nos munic??pios de sua regi??o, tendo como refer??ncia a estrat??gia de descentraliza????o das a????es de sa??de no SUS. A iniciativa alcan??ou a constru????o de um novo marco conceitual sobre avalia????o e controle, a abertura de um canal de comunica????o entre o minist??rio da Sa??de, as DIRES da SES-SP e os munic??pios participantes, o est??mulo ao interc??mbio de pr??ticas e ?? articula????o regional, em conseq????ncia da intera????o de membros do governo estadual e municipal no treinamento, onde foram discutidas as compet??ncias exclusivas e concorrentes de cada gestor, a reciclagem dos auditores federais, todos oriundos do antigo INAMPS, que substitu??ram a concep????o centralizadora pela perspectiva de articula????o entre diferentes gestores para o desenvolvimento de a????es de coopera????o t??cnica e o estabelecimento, pela SES-SP, de par??metros para o atendimento ambulatorial, que passam a viabilizar as a????es de controle

Federalismo fiscal, atribui????es fiscais constitucionais e equaliza????o regional: EUA, Alemanha e Brasil em perspectiva comparada

Este trabalho aborda aspectos institucional-constitucionais do sistema federal brasileiro com vistas a tratar do problema da equaliza????o regional. O foco de an??lise desta investiga????o ser?? a articula????o entre as atribui????es fiscais constitucionais (incluindo a reparti????o das compet??ncias tribut??rias e as principais transfer??ncias correlatas) e a tarefa de equaliza????o regional no Brasil, a partir de uma perspectiva de estudo institucional comparado envolvendo Estados Unidos, Alemanha e Brasil.

Acordo amaz??nico de ci??ncia, tecnologia e inova????o em sa??de: uma experi??ncia de integra????o regional

O presente artigo incorpora a experi??ncia de integra????o regional amaz??nica sob a ??gide do Acordo Amaz??nico de Ci??ncia, Tecnologia e Inova????o em Sa??de. Reconhecendo a import??ncia estrat??gica dessa regi??o detentora de inestim??veis patrim??nios em s??cio e biodiversidades, o Governo Federal declara, em 2003, a Amaz??nia uma prioridade para o combate ??s desigualdades e ao desenvolvimento socioecon??mico, articulando, desde ent??o, f??runs com minist??rios e institui????es regionais, embasados no Programa de Desenvolvimento Sustent??vel da Amaz??nia. Com o objetivo de implementar a????es para produ????o de saber cient??fico voltado ?? realidade local e para a integra????o da pesquisa b??sica e aplicada, ensino e tecnologia, incentiva-se a coopera????o com outras institui????es afins regionais, nacionais e internacionais. Uma dessas a????es resultou, em 2004, na formaliza????o do Acordo Multilateral de Coopera????o T??cnico-Cient??fica em Sa??de das Institui????es da Amaz??nia, cuja proposta baseia-se na constitui????o de uma rede de pesquisa, forma????o de recursos humanos, coopera????o t??cnica com gestores do SUS e coopera????o internacional em sa??de, objetivando desenvolver atividades de investiga????o conjunta para conhecer as realidades s??cios sanit??rias e epidemiol??gicas da regi??o e implementar respostas do sistema de sa??de e de ci??ncia, tecnologia e inova????o.

Desempenho organizacional e arranjo federativo: o slack da Sudene e o colapso na gest??o da pol??tica de planejamento regional

Este artigo procura explicar as raz??es do colapso na gest??o do sistema de planejamento regional no Brasil, debru??ando-se sobre a extin????o da Sudene no final da d??cada de 1990, como estudo de caso. Para tanto, utiliza-se o modelo de sa??da, voz e lealdade de Hirschman, para destacar o funcionamento dos mecanismos promotores do slack organizacional nessa ag??ncia de governo, e sua subsequente extin????o. Assim, sustenta-se o argumento de que a implementa????o de modelo federativo fortemente descentralizado, a partir da Constitui????o de 1988, produziu disfun????es operacionais em uma organiza????o dotada de estrutura decis??ria colegiada, deslegitimando-a, e conduzindo-a ?? extin????o.

Quadros de Ferro? Influências da historiografia na produção de livros didáticos de história regional nos municípios capixabas de Anchieta e Piúma

Espremidas entre o mar e as montanhas, as cidades de Piúma e Anchieta, no litoral sul capixaba, tiveram sua rotina de redes e anzóis alterada com a chegada da Samarco no final da década de 1970 e, posteriormente, do turismo e da exploração do petróleo e do gás. Incomodados, alguns munícipes promoveram atividades que, acreditavam, construiriam uma representação de identidade regional. Entre essas iniciativas está a publicação de livros didáticos abordando a história e a geografia daqueles municípios. Para compreendermos o processo de produção e a narrativa contida nesses livros, nos apoiamos nos conceitos de representação, apropriação e autoria de Chartier (1990, 2002, 2010, 2012) e na análise das relações entre os três sentidos da história – o cotidiano, o escolar e o acadêmico - e do dilema que acompanha a história escolar desde sua origem e que transformou os livros didáticos em documentos de identidade, pensadas por Carretero (2010). O que se encontrou foi uma representação de identidade local que suporta distintas temporalidades, entre elas se destaca o que se chama de influência Varnhagen que produziu uma identidade como resultado da participação das etnias negra e indígena, mas sob predomínio europeu.

Cidades criativas e desenvolvimento regional : o caso de Vitória-ES

O presente trabalho pretende dedicar-se a discussão dos elementos que compõem a economia criativa, para tanto, utiliza diferentes conceitos de criatividade, indústrias criativas e cidades criativas. O termo economia criativa surgiu em 2001 com o livro de John Howkins, mas a idéia básica foi apresentada no estudo Creative Nation realizado pelo governo australiano em 1994. A partir de então, diversos países têm adotado o conceito como instrumento de fomento ao desenvolvimento econômico e social. Assim, a associação da economia criativa a uma economia voltada ao desenvolvimento está ligada, portanto, ao reconhecimento de que a criatividade humana pode ser um ativo econômico (REIS, 2012). Diferentes países e regiões podem utilizar essa abordagem com o objetivo de alcançar efeitos positivos sobre o emprego e como ferramenta para a promoção da inclusão social. A discussão é recente no Brasil, um dos estudos pioneiros foi desenvolvido pela Federação das Indústrias do Estado do Rio de Janeiro (FIRJAN), intitulado “A Cadeia da Indústria Criativa no Brasil”. A partir desse trabalho e do banco de dados da Secretaria de Turismo, Trabalho e Renda – SETGER da prefeitura de Vitória foi possível desenvolver um estudo espacial dos empreendimentos criativos para Vitória -ES. Concluiu-se, então, que a desconcentração dos empreendimentos criativos nas diferentes regiões do município deve ser um dos objetivos buscados para que a cidade se transforme em um espaço mais colaborativo e coeso.