Computer-aided design of a novel ligand for retinoic acid receptor in cancer chemotherapy

The isotypes of RAR and RXR are retinoic acid and retinoid X acid receptors, respectively, whose ligand-binding domain contains the ligand-dependent activation function, with distinct pharmacological targets for retinoids, involved in the treatment of various cancers and skin diseases. Due to the major challenge which cancer treatment and cure still imposes after many decades to the international scientific community, there is actually considerable interest in new ligands with increased bioactivity. We have focused on the retinoid acid receptor, which is considered an interesting target for drug design. In this work, we carried out density functional geometry optimizations, and different docking procedures. We performed screening in a large database (hundreds of thousands of molecules which we optimized at the AM1 level) yielding a set of potential bioactive ligands. A new ligand was selected and optimized at the B3LYP/6-31G* level. A flexible docking program was used to investigate the interactions between the receptor and the new ligand. The result of this work is compared with several crystallographic ligands of RAR. Our theoretically more bioactive new-ligand indicates stronger and more hydrogen bonds as well as hydrophobic interactions with the receptor. (c) 2005 Wiley Periodicals, Inc.

Nonlinear Lattice Within Supersymmetric Quantum Mechanics Formalism

In the last decades, the study of nonlinear one dimensional lattices has attracted much attention of the scientific community. One of these lattices is related to a simplified model for the DNA molecule, allowing to recover experimental results, such as the denaturation of DNA double helix. Inspired by this model we construct a Hamiltonian for a reflectionless potential through the Supersymmetric Quantum Mechanics formalism, SQM. Thermodynamical properties of such one dimensional lattice are evaluated aming possible biological applications.

Synthesis of KNbO3 nanostructures by a microwave assisted hydrothermal method

One-dimensional nanostructures of KNbO3 have attracted a great interest in the scientific community, mainly because of their promising application as nanoelectromechanical systems (NEMS). However, the synthesis of KNbO3 structures becomes complex due to the natural tendency to form non-stoichiometric potassium niobates. In this context, we report on the crystallization of one-dimensional KNbO3 nanostructures through the reaction between Nb2O5 and KOH under microwave-assisted hydrothermal synthesis (M-H). The use of this synthesis method made possible a very fast synthesis of singlecrystalline powders. Based on SEM, TEM and XRD characterizations, the influence of the synthesis time and the reactants concentration in the structure and morphology of the resultant KNbO3 was established. The conditions that favor the crystallization of nanofingers were determined to be small amounts of Nb2O5 and short reaction times. (C) 2008 Elsevier B.V. All rights reserved.

Principais conclusões do workshop conjunto dos programas FAPESP BIOTA-BIOEN-mudanças climáticas: ciência e políticas públicas para uma economia mais verde, no contexto da RIO+20

Este Ponto de Vista resume as conclusões de um Workshop conjunto, organizado pelos três Programas da FAPESP na Área Ambiental - BIOTA (O Instituto Virtual da Biodiversidade) - BIOEN (Pesquisa em Bioenergia) - Mudanças Climáticas, para discutir a contribuição da comunidade científica para a RIO+20, a Conferência das Nações Unidas para o Desenvolvimento Sustentável. O grupo de pesquisadores brasileiros reunidos pela FAPESP no início de março de 2012 levantou as seguintes preocupações: a) o número reduzido de oportunidades para a comunidade científica interagir com Conferências como a RIO+20; b) as graves deficiências do ZeroDraft, documento produzido pela Divisão das Nações Unidas para o Desenvolvimento Sustentável para a RIO +20; c) o fato do foco de pesquisa dos três Programas de Pesquisa Ambiental da FAPESP - biodiversidade, bioenergia e mudanças climáticas - não estarem na pauta das discussões da RIO+20; d) que pouca ênfase é dada aos oceanos na Agenda da Conferência; e) em relação aos mecanismos de mercado associados com a transição para uma economia mais verde, a necessidade de enfatizar a redução de subsídios perversos e a promoção de incentivos econômicos para atividades ou processos de mitigação e/ou seqüestro de carbono; f) a necessidade de estimular o desenvolvimento e a consolidação da pesquisa na área de avaliação e valoração de serviços ambientais, no Brasil. Os participantes do Workshop reconheceram a necessidade de aprofundar o conhecimento sobre as convenções, tratados e acordos internacionais assinados e ratificados pelo Brasil, bem como as instituições internacionais, programas e iniciativas que promovem a participação da comunidade científica no debate de políticas ambientais globais. Finalmente, do ponto de vista dos três programas da FAPESP dois pontos foram destacados: a) que é imperativo aprofundar o conhecimento científico em cada uma das três áreas focais - biodiversidade, bioenergia e mudanças climáticas - porque é necessário aumentar a massa crítica de pesquisadores e do conhecimento para participar das discussões internacionais nessas áreas estratégicas; b) também é imperativo apoiar e promover projetos de pesquisa que integrem as áreas focais dos três programas, estimulando a constituição de equipes inter e transdisciplinares. Esta é uma tendência mundial na área das mudanças ambientais globais, e os participantes dos três programas sentem que podem dar uma contribuição significativa para o avanço do conhecimento, para o debate internacional e para a efetiva solução dos problemas.

Diversidade da ictiofauna do Alto Rio Paraná: composição atual e perspectivas futuras

É apresentada uma síntese sobre os peixes do Alto Paraná, com base em dados de coleções, dados de literatura e novas coletas. Trezentas e dez espécies, de 11 ordens e 38 famílias, são referidas para a drenagem, aumentando significativamente números anteriores. Dentre as espécies da área, 236 (76,1%) são autóctones, 67 (21,6%) alóctones e sete (2,3%) exóticas. As principais causas de ocorrência de espécies não nativas (alóctones e exóticas) foram a dispersão a partir do baixo Paraná, após a construção do Reservatório de Itaipu e o escape de pisciculturas. A maior parte das espécies referidas (65%) tem porte pequeno, sendo menor que 21 cm de comprimento; dentre essas, a maioria ocorre apenas em riachos e cabeceiras. Apesar da ictiofauna do Alto Paraná ser uma das melhor conhecidas e mais estudadas, o número de espécies descritas ou referidas para a área tem crescido exponencialmente, o que indica que a riqueza apresentada está longe de representar a realidade. de fato, várias novas espécies têm sido descritas nos últimos anos e cerca de 50 novas espécies, já reconhecidas, estão em fase de descrição. A melhoria no conhecimento sobre a ictiofauna do Alto Paraná é proporcional ao número de pesquisadores envolvidos em estudos na bacia e reflete, de modo inequívoco, iniciativas recentes que têm estimulado e incrementado pesquisas taxonômicas, facilitado o acesso ao material depositado em coleções científicas e aumentado as coletas em áreas e ambientes pouco amostrados. Entretanto, mantido o ritmo de descrições de novas espécies ocorrido até agora nessa última década, as 50 novas espécies já reconhecidas estariam descritas apenas dentro de dez anos, um tempo demasiadamente longo. Por essa razão é muito importante que a comunidade científica e os órgãos de fomento encontrem e viabilizem iniciativas de modo a aumentar esse ritmo de descrições de novos táxons e disponibilizar esses novos nomes mais rapidamente.

Saúde pública e as empresas químico-farmacêuticas

O artigo trata da formação da indústria farmacêutica brasileira. Aborda algumas questões de história econômica e social, tais como o surgimento do sistema de saúde pública, as práticas de combate às doenças infecciosas, desde as desinfecções e produção de substâncias químicas pela indústria, à soroterapia e produção de soros e vacinas nas instituições de pesquisa científica públicas e nas empresas farmacêuticas privadas. Toma para análise da indústria farmacêutica privada nacional, a empresa Instituto Pinheiros - Produtos Terapêuticos S.A., enfatizando as relações entre seus cientistas, no desenvolvimento de produtos, de tecnologia e da própria discussão científica com as instituições públicas de pesquisa criadas no âmbito da política de saúde pública pelo estado de São Paulo.

The generation and utilization of a cancer-oriented representation of the human transcriptome by using expressed sequence tags

Whereas genome sequencing defines the genetic potential of an organism, transcript sequencing defines the utilization of this potential and links the genome with most areas of biology. To exploit the information within the human genome in the fight against cancer, we have deposited some two million expressed sequence tags (ESTs) from human tumors and their corresponding normal tissues in the public databases. The data currently define approximate to23,500 genes, of which only approximate to1,250 are still represented only by ESTs. Examination of the EST coverage of known cancer-related (CR) genes reveals that <1% do not have corresponding ESTs, indicating that the representation of genes associated with commonly studied tumors is high. The careful recording of the origin of all ESTs we have produced has enabled detailed definition of where the genes they represent are expressed in the human body. More than 100,000 ESTs are available for seven tissues, indicating a surprising variability of gene usage that has led to the discovery of a significant number of genes with restricted expression, and that may thus be therapeutically useful. The ESTs also reveal novel nonsynonymous germline variants (although the one-pass nature of the data necessitates careful validation) and many alternatively spliced transcripts. Although widely exploited by the scientific community, vindicating our totally open source policy, the EST data generated still provide extensive information that remains to be systematically explored, and that may further facilitate progress toward both the understanding and treatment of human cancers.

Comparing emergy accounting with well-known sustainability metrics: The case of Southern Cone Common Market, Mercosur

The quality and the power of human activities affect the external environment in different ways that can be measured and evaluated by means of several approaches and indicators. While the scientific community has been publishing several proposals for sustainable development indicators, there is still no consensus regarding the best approach to the use of these indicators and their reliability to measure sustainability. It is important, therefore, to question the effectiveness of sustainable development indicators in an effort to continue in the search for sustainability. This paper compares the results obtained with emergy accounting with five global Sustainability Metrics (SMs) proposed in the literature to verify if metrics are communicating coherent and similar information to guide decision makers towards sustainable development. Results obtained using emergy indices are discussed with the aid of emergy ternary diagrams. Metrics are confronted with emergy results, and the degree of variability among them is analyzed using a correlation matrix created for the Mercosur nations. The contrast of results clearly shows that metrics arrive at different interpretations about the sustainability of the nations studied, but also that some metrics may be grouped and used more prudently. Mercosur is presented as a case study to highlight and explain the discrepancies and similarities among Sustainability Metrics, and to expose the extent of emergy accounting. (C) 2010 Elsevier Ltd. All rights reserved.

A Review on the Challenges for Increased Production of Castor

Castor (Ricinus communis L.) is one of the oldest cultivated crops, but currently it represents only 0.15% of the vegetable oil produced in the world. Castor oil is of continuing importance to the global specialty chemical industry because it is the only commercial source of a hydroxylated fatty acid. Castor also has tremendous future potential as an industrial oilseed crop because of its high seed oil content (more than 480 g kg(-1)), unique fatty acid composition (900 g kg(-1) of ricinoleic acid), potentially high oil yields (1250-2500 L ha(-1)), and ability to be grown under drought and saline conditions. The scientific literature on castor has been generated by a relatively small global community of researchers over the past century. Much of this work was published in dozens of languages in journals that are not easily accessible to the scientific community. This review was conducted to provide a compilation of the most relevant historic research information and define the tremendous future potential of castor. The article was prepared by a group of 22 scientists from 16 institutions and eight countries. Topics discussed in this review include: (i) germplasm, genetics, breeding, biotic stresses, genome sequencing, and biotechnology; (ii) agronomic production practices, diseases, and abiotic stresses; (iii) management and reduction of toxins for the use of castor meal as both an animal feed and an organic fertilizer; (iv) future industrial uses of castor including renewable fuels; (v) world production, consumption, and prices; and (vi) potential and challenges for increased castor production.

The GHEP-EMPOP collaboration on mtDNA population data-A new resource for forensic casework

Mitochondrial DNA (mtDNA) population data for forensic purposes are still scarce for some populations, which may limit the evaluation of forensic evidence especially when the rarity of a haplotype needs to be determined in a database search. In order to improve the collection of mtDNA lineages from the Iberian and South American subcontinents, we here report the results of a collaborative study involving nine laboratories from the Spanish and Portuguese Speaking Working Group of the International Society for Forensic Genetics (GHEP-ISFG) and EMPOP. The individual laboratories contributed population data that were generated throughout the past 10 years, but in the majority of cases have not been made available to the scientific community. A total of 1019 haplotypes from Iberia (Basque Country, 2 general Spanish populations, 2 North and 1 Central Portugal populations), and Latin America (3 populations from São Paulo) were collected, reviewed and harmonized according to defined EMPOP criteria. The majority of data ambiguities that were found during the reviewing process (41 in total) were transcription errors confirming that the documentation process is still the most error-prone stage in reporting mtDNA population data, especially when performed manually. This GHEP-EMPOP collaboration has significantly improved the quality of the individual mtDNA datasets and adds mtDNA population data as valuable resource to the EMPOP database (www.empop.org). (C) 2010 Elsevier B.V. All rights reserved.

Wetland projects developed in Brazil

The first studies with constructed wetlands undertaken in Brazil were the result of observations made from the Amazon flood plains. The first attempt to use this capacity to change the quality of the water, in the sense of purification performed in Brazil using constructed wetland systems, was made by Salati et al. After that, new technologies were developed in a focused attempt to increase the efficiency of the system and reduce investments. Over these 18 years, persuading the Brazilian scientific community as well as the environmental control agencies to give due attention to this kind of research has required endless efforts. Only in recent years have major institutions responsible for sewage treatment and potable water supply been concerned with this type of technology for solving real problems. These institutions are as follows: SABESP (Basic Sanitation Company of Sao Paulo State), SANEPAR (Sanitation Company of Parana State) and CESP (Electric Company of Sao Paulo State). One of the private institutions that has systematically worked in the design and projects of constructed wetlands is the Institute of Applied Ecology. This institution has enhanced and developed a water depuration system based on the purifying capacity of the soil. The wetlands with filtering soils are systems formed by overlapping layers of crushed stone, gravel and soil planted with rice. This technology has been used in sewage treatment and also in water supply systems.

Desafios na publicação científica.

We discuss the main problems which make a scientific text difficult to find, to be read or to be accepted by readers. A scientific text is considered a logical argument. Therefore, methods, results and data from literature are premises supporting the conclusions of the work; and in the Introduction session, the justification corroborates the objective of the study. This conception makes the text a hermetically coherent structure where only the necessary data should be included (some controversy is still pertinent). In a second step, we show formal mistakes in scientific writing which make texts less attractive. Thus, we give examples of errors or inadequacy of formal aspects of presenting titles, abstracts, results (figures and tables), and grammar mistakes in Portuguese (but also valid for English grammar). After that, we emphasize the need for writing in international language (English) and for publication in periodicals with international impact on the scientific community. Finally, considerations to improve the Brazilian periodicals in the biological area are presented.

Evaluation of race distance, track surface and season of the year on exercise-induced pulmonary haemorrhage in flat racing Thoroughbreds in Brazil

Reasons for performing study: To our knowledge no studies evaluating risk factors to EIPH have been undertaken with such a population of horses in Brazil, which is one of the few countries in the racing community to accept the use of frusemide (FUR) as a prerace medication for bleeders. We also compared national results with those already in the literature. Objectives: To verify the influence of variables such as distance of the race, racetrack surface, going and season of the year in the recurrence and severity of EIPH and its effect on the finishing position of flat racing Thoroughbreds in Brazil. Methods: 2118 post race respiratory endoscopies were recorded, in a total of 1003 individual horses. All horses in the study were certified bleeders (deemed positive by registered veterinarians following one or more endoscopies) and were administered FUR prior to each race. Data was analysed using both ordinary logistic regression and multiple logistic regression. Results: The results suggest that race distance, season of the year and racetrack surface affect the recurrence of EIPH. Also, despite the use of FUR, the majority (62%) of horses continued to display some degree of haemorrhage. Conclusions: There was a tendency for horses that remained positive despite the use of FUR to finish unplaced in a race. Horses which had a significant reduction in bleeding and became HPIE negative after the use of FUR, tended to finish in top positions. It was not possible to determine a pattern of severity of EIPH in horses with more than one endoscopy. Further studies are required to improve our understanding of this syndrome and its correlations to performance in the racing Thoroughbred, together with the role of FUR and its possible enhancing performance effects and efficacy in consistently diminishing EIPH. Potential relevance: This study enabled a better understanding of the use of FUR in Brazilian Thoroughbred racehorses and showed there was a tendency towards improvement in performance after administrion of FUR in bleeders. The fact that a large number of horses remained positive for EIPH despite the use of FUR should encourage the scientific community to search for better ways of reducing, or preventing, this syndrome. © 2006 EVJ Ltd.

Protocolo para ensaios físico-químicos de estabilidade de fitocosméticos

The growing demand for stable, safe and effective cosmetics has required increasingly complex studies by the scientific community and the use of more efficient techniques to determine the stability of these products. The use of active principles from the Brazilian flora has led to the development of numerous products, in the most varied pharmaceutical forms, making it, even more difficult to standardize experimental protocols to certify the stability of cosmetic preparations. While in Brazil there is no one protocol that standardizes the tests that should be carried out to determine product stability, several studies have been conducted in academic laboratories to determine the stability of specific raw materials. The rheological properties of topical use products have to be taken into account in their manufacture, storage and application. The determination of the rheological behavior of a formulation helps in evaluating the physicochemical nature of the vehicle, allowing early signs of physical instability to be detected and thus enabling quality control of the constituents, test formulations and final products. Thermal analysis has also been used to assist in the study of cosmetic stability and differential scanning calorimetry to guide the development of new products. Other tools, such as fluorimetry and laser granulometry can be used to help the study and development of both emulsified and non-emulsified systems. The aim of the present study is to develop a protocol for the investigation of the physical and chemical stability of phytocosmetics - systems containing active compounds extracted from the Brazilian biodiversity.

Conceito e classificação da dormência em sementes

Despite being known to science for quite a long time, the phenomenon of seed dormancy still baffles the scientific community for the multiple complex underlying mechanisms. The current classification systems of seed dormancy attempt to condense all that is known about the phenomenon in an attempt to generate a conceptual database that would enable facilitated interpretation of upcoming information and allow for a better contextuation of research in this field. The present paper is a preliminary overview of the current panorama of concepts and classification systems of seed dormancy that intends to serve as a standpoint for future research in this field.