Biopolymers in nanopores: challenges and opportunities

We review the current status of various aspects of biopolymer translocation through nanopores and the challenges and opportunities it offers. Much of the interest generated by nanopores arises from their potential application to third-generation cheap and fast genome sequencing. Although the ultimate goal of single-nucleotide identification has not yet been reached, great advances have been made both from a fundamental and an applied point of view, particularly in controlling the translocation time, fabricating various kinds of synthetic pores or genetically engineering protein nanopores with tailored properties, and in devising methods (used separately or in combination) aimed at discriminating nucleotides based either on ionic or transverse electron currents, optical readout signatures, or on the capabilities of the cellular machinery. Recently, exciting new applications have emerged, for the detection of specific proteins and toxins (stochastic biosensors), and for the study of protein folding pathways and binding constants of protein-protein and protein-DNA complexes. The combined use of nanopores and advanced micromanipulation techniques involving optical/magnetic tweezers with high spatial resolution offers unique opportunities for improving the basic understanding of the physical behavior of biomolecules in confined geometries, with implications for the control of crucial biological processes such as protein import and protein denaturation. We highlight the key works in these areas along with future prospects. Finally, we review theoretical and simulation studies aimed at improving fundamental understanding of the complex microscopic mechanisms involved in the translocation process. Such understanding is a pre-requisite to fruitful application of nanopore technology in high-throughput devices for molecular biomedical diagnostics.

Interaction of nucleic acids with carbon nanotubes and dendrimers

Nucleic acid interaction with nanoscale objects like carbon nanotubes (CNTs) and dendrimers is of fundamental interest because of their potential application in CNT separation, gene therapy and antisense therapy. Combining nucleic acids with CNTs and dendrimers also opens the door towards controllable self-assembly to generate various supra-molecular and nano-structures with desired morphologies. The interaction between these nanoscale objects also serve as a model system for studying DNA compaction, which is a fundamental process in chromatin organization. By using fully atomistic simulations, here we report various aspects of the interactions and binding modes of DNA and small interfering RNA (siRNA) with CNTs, graphene and dendrimers. Our results give a microscopic picture and mechanism of the adsorption of single- and double-strand DNA (ssDNA and dsDNA) on CNT and graphene. The nucleic acid-CNT interaction is dominated by the dispersive van der Waals (vdW) interaction. In contrast, the complexation of DNA (both ssDNA and dsDNA) and siRNA with various generations of poly-amido-amine (PAMAM) dendrimers is governed by electrostatic interactions. Our results reveal that both the DNA and siRNA form stable complex with the PAMAM dendrimer at a physiological pH when the dendrimer is positively charged due to the protonation of the primary amines. The size and binding energy of the complex increase with increase in dendrimer generation. We also give a summary of the current status in these fields and discuss future prospects.

Polymorphic phase transition among the titania crystal structures using a solution-based approach: from precursor chemistry to nucleation process

Nanocrystalline titania are a robust candidate for various functional applications owing to its non-toxicity, cheap availability, ease of preparation and exceptional photochemical as well as thermal stability. The uniqueness in each lattice structure of titania leads to multifaceted physico-chemical and opto-electronic properties, which yield different functionalities and thus influence their performances in various green energy applications. The high temperature treatment for crystallizing titania triggers inevitable particle growth and the destruction of delicate nanostructural features. Thus, the preparation of crystalline titania with tunable phase/particle size/morphology at low to moderate temperatures using a solution-based approach has paved the way for further exciting areas of research. In this focused review, titania synthesis from hydrothermal/solvothermal method, conventional sol-gel method and sol-gel-assisted method via ultrasonication, photoillumination and ILs, thermolysis and microemulsion routes are discussed. These wet chemical methods have broader visibility, since multiple reaction parameters, such as precursor chemistry, surfactants, chelating agents, solvents, mineralizer, pH of the solution, aging time, reaction temperature/time, inorganic electrolytes, can be easily manipulated to tune the final physical structure. This review sheds light on the stabilization/phase transformation pathways of titania polymorphs like anatase, rutile, brookite and TiO2(B) under a variety of reaction conditions. The driving force for crystallization arising from complex species in solution coupled with pH of the solution and ion species facilitating the orientation of octahedral resulting in a crystalline phase are reviewed in detail. In addition to titanium halide/alkoxide, the nucleation of titania from other precursors like peroxo and layered titanates are also discussed. The nonaqueous route and ball milling-induced titania transformation is briefly outlined; moreover, the lacunae in understanding the concepts and future prospects in this exciting field are suggested.

Tailoring the interface in graphene/thermoset polymer composites: A critical review

With the emergence of scientific interest in graphene oxide (GO) in recent times, researchers have endeavored to incorporate GO in thermoset polymeric matrix to develop composites with extraordinary set of properties. The current state of research in graphene/thermoset polymer composites is highlighted here with a focus on the role of interface in dictating the overall properties of the composites. Different strategies like covalent and non-covalent functionalization of GO have been discussed with respect to improvement in mechanical, electrical, thermal and rheological properties. In addition, future prospects have been outlined. By assessing the current state of research in graphene/thermoset composites, it is obvious that graphene derivatives are promising materials in enhancing the structural properties of the nanocomposites at extremely low levels of filler loading. This opens new avenues in designing lightweight composites for myriad applications and by tailoring the interfacial adhesion with the polymer, ordered structure can be achieved at macroscopic processing scales. (C) 2015 Elsevier Ltd. All rights reserved.

Microfabrication and application of reservoir pins for liquid transfer in biotechnology

Microarraying involves laying down genetic elements onto a solid substrate for DNA analysis on a massively parallel scale. Microarrays are prepared using a pin-based robotic platform to transfer liquid samples from microtitre plates to an array pattern of dots of different liquids on the surface of glass slides where they dry to form spots diameter < 200 μm. This paper presents the design, materials selection, micromachining technology and performance of reservoir pins for microarraying. A conical pin is produced by (i) conventional machining of stainless steel or wet etching of tungsten wire, followed by (ii) micromachining with a focused laser to produce a microreservoir and a capillary channel structure leading from the tip. The pin has a flat end diameter < 100 μm from which a 500 μm long capillary channel < 15 μm wide leads up the pin to a reservoir. Scanning electron micrographs of the metal surface show roughness on the scale of 10 μm, but the pins nevertheless give consistent and reproducible spotting performance. The pin capacity is 80 nanolitres of fluid containing DNA, and at least 50 spots can be printed before replenishing the reservoir. A typical robot holds can hold up to 64 pins. This paper discusses the fabrication technology, the performance and spotting uniformity for reservoir pins, the possible limits to miniaturization of pins using this approach, and the future prospects for contact and non-contact arraying technology.

Repositórios institucionais de acesso livre no Brasil : estudo Delfos

A filosofia do acesso livre ao conhecimento científico surgiu da dificuldade das bibliotecas universitárias de todo mundo em manter atualizadas as assinaturas das coleções de periódicos científicos. Os repositórios institucionais são uma das ferramentas que se mostram como alternativa para a comunicação da Ciência livre de barreiras de acesso. A pesquisa tem por objetivo verificar quais são as perspectivas futuras das atuais políticas de implementação de repositórios institucionais de acesso livre no Brasil na opinião de especialistas na área, tendo como base a análise do estado da arte das implementações de Repositórios Institucionais no Brasil. Neste trabalho, a pesquisa é dividida em três etapas: a primeira consiste na coleta de dados descritivos dos repositórios institucionais da Universidade de Brasília (RIUnB) e do Superior Tribunal de Justiça (BDJur-STJ); já na segunda etapa de pesquisa, procede-se à consulta aos especialistas indagando-os acerca da situação atual das implementações de repositórios institucionais no Brasil; e, por fim, na terceira etapa de pesquisa consultamos estes mesmos especialistas sobre os desdobramentos futuros destas políticas no País. Utilizamos da técnica Delfos de pesquisa, onde os especialistas são consultados através de questionários constituídos de perguntas abertas, possibilitando assim chegar a um consenso das opiniões no final da pesquisa. Como resultado da pesquisa, é elaborado um quadro com a tabulação das respostas dos especialistas consultados revelando o panorama das perspectivas futuras das implementações de repositórios institucionais no Brasil na opinião dos especialistas que fazem parte da nossa amostra de pesquisa.

Relaciones amorosas de pareja en las trayectorias vitales de las mujeres encarceladas

[ES]La tesis doctoral analiza las experiencias amorosas de pareja de mujeres encarceladas, con el doble objetivo de visibilizar a las mujeres presas en el ámbito de las ciencias sociales y de introducir las especificidades de las mujeres encarceladas en los debates sociológicos y feministas acerca del amor. Las escasas aproximaciones al amor entre las mujeres presas han tendido a explicar sus relaciones de pareja desde el concepto de “dependencia emocional”, que, como se muestra en la tesis, presenta dos debilidades básicas, de un lado la tendencia a la psicologización y patologización de cuestiones de claro sustrato social; de otro la homogeneización de experiencias que presentan gran diversidad. Otra debilidad de ciertos análisis sobre las mujeres presas y aquellas excluidas socialmente, es que se han basado en concepciones sexistas acerca de las mujeres transgresoras como “malas mujeres”, por considerar que no cumplen con las expectativas culturales y sociales asociadas a los supuestos atributos de género. Esta tesis doctoral adopta una epistemología basada en la crítica feminista que busca modelos analíticos alejados de los estereotipos y la estigmatización de las mujeres transgresoras. Desde una perspectiva metodológica cualitativa, el trabajo de campo fue desarrollado en la cárcel de Nanclares de Oca (País Vasco) durante el 2008. Desarrollé un trabajo etnográfico de observación participante y entrevistas en profundidad semiestructuradas que elaboraban información sobre aspectos relativos a sus trayectorias de vida (familia de origen, vivienda, empleo, nivel educativo, situación penal y penitenciaria, estado de salud, etc.) y sus experiencias amorosas de pareja. En mi análisis, he rastreado la diversidad y variabilidad de las experiencias amorosas de las mujeres presas, el impacto del encarcelamiento en sus trayectorias amorosas y en la configuración de su intimidad, los elementos que hacen para estas mujeres del amor un “cautiverio”, y al mismo tiempo, las estrategias “liberadoras” que despliegan en sus desarrollos afectivos. El amor puede constituir un cautiverio para las mujeres ya que favorece la acomodación a unos roles de género que definen a las mujeres como dependientes y carentes de libertad. Al mismo tiempo, el amor se puede entender como una “estrategia emocional”, una forma de superar las consecuencias del encierro y de lograr ciertos estándares de “normalización” social, en un contexto en que se encuentran excluidas socialmente y fuertemente estigmatizadas.

Aquaculture Asia, Vol.14, No.2, pp.1-40, April-June 2009

Sustainable aquaculture GLOBALG.A.P. standard in Thai shrimp farms: Mission (im)possible? p.4 Leepaisomboon, T., Chuchird, N., Limsuwan, C., Steenbruggen, E.R., and Mungkung, R. The Victorian trout industry & the bushfires p.6 Mosig, J. Small-scale aquaculture in the Ayeyarwady Delta, Myanmar p.10 Edwards, P. The history, status, and future prospects of monosex tilapia culture in Thailand p.18 Belton, B., Turongruang, D., Bhujel, R. and Little, D.C. Mangroves of Nakhon Si Thammarat Province in southern Thailand: Species diversity, community structure and current status p.20 By Amarasinghe, M.D., Dulyapurk, V., Taparhudee, W., Yoonpundh, R. and Jumnongsong, S. Research and farming techniques Induced breeding of pacu (Piaractus brachypomus) in captivity with pituitary extract p.23 Chattarjee, N.R. and Mazumdar, B. Aquatic animal health Fumonisins - mycotoxins of increasing importance in fish! p. 24 Griessler, K. and Encarnação, P. Genetics and biodiversity Microsatellite DNA markers, a fisheries perspective. Part 1: The nature of microsatellites p.27 Sekar, M., Suresh, E., Kumar, N.S., Nayak, S.K., Balakrishna, C. Asia-Pacific Marine Finfi sh Aquaculture Magazine Formulated feed for tiger grouper grow-out p.30 Rachmansyah, Usman, Palinggi, N.N. and Williams, K. NACA Newsletter 36

Did galaxies reionize the universe?

The epoch of reionization remains one of the last uncharted eras of cosmic history, yet this time is of crucial importance, encompassing the formation of both the first galaxies and the first metals in the universe. In this thesis, I present four related projects that both characterize the abundance and properties of these first galaxies and uses follow-up observations of these galaxies to achieve one of the first observations of the neutral fraction of the intergalactic medium during the heart of the reionization era.

First, we present the results of a spectroscopic survey using the Keck telescopes targeting 6.3 < z < 8.8 star-forming galaxies. We secured observations of 19 candidates, initially selected by applying the Lyman break technique to infrared imaging data from the Wide Field Camera 3 (WFC3) onboard the Hubble Space Telescope (HST). This survey builds upon earlier work from Stark et al. (2010, 2011), which showed that star-forming galaxies at 3 < z < 6, when the universe was highly ionized, displayed a significant increase in strong Lyman alpha emission with redshift. Our work uses the LRIS and NIRSPEC instruments to search for Lyman alpha emission in candidates at a greater redshift in the observed near-infrared, in order to discern if this evolution continues, or is quenched by an increase in the neutral fraction of the intergalactic medium. Our spectroscopic observations typically reach a 5-sigma limiting sensitivity of < 50 AA. Despite expecting to detect Lyman alpha at 5-sigma in 7-8 galaxies based on our Monte Carlo simulations, we only achieve secure detections in two of 19 sources. Combining these results with a similar sample of 7 galaxies from Fontana et al. (2010), we determine that these few detections would only occur in < 1% of simulations if the intrinsic distribution was the same as that at z ~ 6. We consider other explanations for this decline, but find the most convincing explanation to be an increase in the neutral fraction of the intergalactic medium. Using theoretical models, we infer a neutral fraction of X_HI ~ 0.44 at z = 7.

Second, we characterize the abundance of star-forming galaxies at z > 6.5 again using WFC3 onboard the HST. This project conducted a detailed search for candidates both in the Hubble Ultra Deep Field as well as a number of additional wider Hubble Space Telescope surveys to construct luminosity functions at both z ~ 7 and 8, reaching 0.65 and 0.25 mag fainter than any previous surveys, respectively. With this increased depth, we achieve some of the most robust constraints on the Schechter function faint end slopes at these redshifts, finding very steep values of alpha_{z~7} = -1.87 +/- 0.18 and alpha_{z~8} = -1.94 +/- 0.23. We discuss these results in the context of cosmic reionization, and show that given reasonable assumptions about the ionizing spectra and escape fraction of ionizing photons, only half the photons needed to maintain reionization are provided by currently observable galaxies at z ~ 7-8. We show that an extension of the luminosity function down to M_{UV} = -13.0, coupled with a low level of star-formation out to higher redshift, can fit all available constraints on the ionization history of the universe.

Third, we investigate the strength of nebular emission in 3 < z < 5 star-forming galaxies. We begin by using the Infrared Array Camera (IRAC) onboard the Spitzer Space Telescope to investigate the strength of H alpha emission in a sample of 3.8 < z < 5.0 spectroscopically confirmed galaxies. We then conduct near-infrared observations of star-forming galaxies at 3 < z < 3.8 to investigate the strength of the [OIII] 4959/5007 and H beta emission lines from the ground using MOSFIRE. In both cases, we uncover near-ubiquitous strong nebular emission, and find excellent agreement between the fluxes derived using the separate methods. For a subset of 9 objects in our MOSFIRE sample that have secure Spitzer IRAC detections, we compare the emission line flux derived from the excess in the K_s band photometry to that derived from direct spectroscopy and find 7 to agree within a factor of 1.6, with only one catastrophic outlier. Finally, for a different subset for which we also have DEIMOS rest-UV spectroscopy, we compare the relative velocities of Lyman alpha and the rest-optical nebular lines which should trace the cites of star-formation. We find a median velocity offset of only v_{Ly alpha} = 149 km/s, significantly less than the 400 km/s observed for star-forming galaxies with weaker Lyman alpha emission at z = 2-3 (Steidel et al. 2010), and show that this decrease can be explained by a decrease in the neutral hydrogen column density covering the galaxy. We discuss how this will imply a lower neutral fraction for a given observed extinction of Lyman alpha when its visibility is used to probe the ionization state of the intergalactic medium.

Finally, we utilize the recent CANDELS wide-field, infra-red photometry over the GOODS-N and S fields to re-analyze the use of Lyman alpha emission to evaluate the neutrality of the intergalactic medium. With this new data, we derive accurate ultraviolet spectral slopes for a sample of 468 3 < z < 6 star-forming galaxies, already observed in the rest-UV with the Keck spectroscopic survey (Stark et al. 2010). We use a Bayesian fitting method which accurately accounts for contamination and obscuration by skylines to derive a relationship between the UV-slope of a galaxy and its intrinsic Lyman alpha equivalent width probability distribution. We then apply this data to spectroscopic surveys during the reionization era, including our own, to accurately interpret the drop in observed Lyman alpha emission. From our most recent such MOSFIRE survey, we also present evidence for the most distant galaxy confirmed through emission line spectroscopy at z = 7.62, as well as a first detection of the CIII]1907/1909 doublet at z > 7.

We conclude the thesis by exploring future prospects and summarizing the results of Robertson et al. (2013). This work synthesizes many of the measurements in this thesis, along with external constraints, to create a model of reionization that fits nearly all available constraints.

História de Vida de alunos com deficiência intelectual: percurso escolar e a constituição do sujeito

Esta tese procura compreender o processo de inclusão escolar dos alunos com deficiência intelectual a partir das suas histórias de vida e da percepção que eles têm da escola, considerando a relação entre deficiência, escola e construção do conhecimento. A pesquisa foi realizada em uma escola do campo, pertencente à rede pública estadual do município de Teresópolis no Rio de Janeiro. Objetivo principal foi compreender o processo de inclusão das pessoas com deficiência intelectual na escola regular a partir das histórias de cinco jovens inseridos na rede regular de ensino. Tratou-se de uma pesquisa qualitativa norteada pelo método da história de vida, segundo os pressupostos de Glat (2009), Augras (2009), Ferrarotti (1993) e outros. O referencial teórico adotado no estudo pautou-se na abordagem psicossocial da deficiência, ressaltando a relação que a pessoa com deficiência estabelece com o meio social e cultural do qual faz parte. A partir das histórias de vida dos sujeitos foi possível compreender como os jovens narram sua trajetória escolar, com destaque para as seguintes categorias: 1) trajetória escolar, 2) o papel da escola; 3) relação com os professores e as disciplinas; 4) relação com os colegas dentro e fora da escola; 5) perspectivas de futuro e transição para a vida adulta. O estudo revelou as contradições e a complexidade do processo de inclusão de alunos com deficiência intelectual em escolas comuns, particularmente quando se trata da inserção de jovens no segundo segmento do Ensino Fundamental e no Ensino Médio. Percebemos que mesmo após anos de discussões e pesquisas sobre a inclusão escolar de alunos com deficiência intelectual suas trajetórias ainda são marcadas pela cultura da incapacidade e do descrédito em relação ao que esses alunos podem fazer. As políticas de inclusão, embora bastante avançadas do ponto de vista de suas concepções teóricas, na prática não se traduzem na superação de práticas homogeneizadoras de ensino e organização do espaço escolar. Esperamos que esta pesquisa contribua significativamente para o contexto da educação brasileira, seja no âmbito da escola comum ou da Educação Especial, de maneira que as falas que aqui foram apresentadas ecoem e signifiquem um ponto de reflexão sobre como os sistemas educacionais e nós mesmos estamos compreendendo o processo de inclusão de alunos com deficiência e outras necessidades especiais na escola e na sociedade.

Influências neoliberais na mudança das expectativas da juventude brasileira

O presente estudo tem como objetivo analisar como as políticas neoliberais de desestruturação do Estado e da economia, implementadas no Brasil na década de noventa, afetaram as perspectivas de futuro dos jovens de baixa renda no Brasil, e em que medida as políticas do governo Lula, que buscam recuperar o Estado e a economia, alteraram esta realidade. O estudo parte de uma compreensão da juventude enquanto um tempo de construção de identidades e de definição de projetos de futuro, e de que a elaboração de um projeto de futuro se dá dentro de um campo de possibilidades, o qual se relaciona diretamente com o tempo histórico e cultura coletiva em que o sujeito se insere. O desenvolvimento teórico-metodológico do estudo compõe-se de levantamento bibliográfico, análise textual, e historicização do objeto, através dos quais se busca destruir a pseudoconcreticidade do fenômeno observado, e conhecer sua autêntica objetividade. O primeiro capítulo versa sobre a doutrina neoliberal, sua origem, ascensão e efeitos, principalmente sobre o mundo do trabalho. O segundo capítulo relata a adesão brasileira ao projeto neoliberal nos anos noventa, que tem lugar com a eleição de Fernando Henrique Cardoso, e suas conseqüências para a juventude. O terceiro capítulo analisa o governo Lula, suas rupturas e continuidades com relação ao governo anterior, a inscrição da temática da juventude como alvo de políticas públicas e o estabelecimento de políticas de emprego, trabalho e renda para os jovens.

Política de adoção tardia: dimensões sociais, culturais e jurídicas

A presente dissertação tem a preocupação de demonstrar a relevância não só psicológica como também social da adoção tardia mergulhando em temas como o abandono familiar, a falta de perspectivas e de planos futuros que isso acarreta. É desconhecida em pesquisas a abordagem do tema adoção tardia, mas pela visão do contexto social capitalista em que a sociedade está inserida nos levou a supor sob a ótica marxista que o modelo capitalista seja fator causador do abandono de crianças. A proposta dessa dissertação é analisar o programa social denominado UM LAR PARA MIM, desenvolvido e aplicado através da Lei Estadual numero 3.499 de 08 de dezembro de 2000, pelo Governo do Estado do Rio de Janeiro. Este instrumento legal, através de incentivos, possibilita aos servidores estaduais adotarem crianças com mais de cinco anos de idade, dando-lhes a oportunidade de terem uma família, um lar e perspectivas de futuro. O objetivo geral foi o de realizar um estudo empírico acerca da adoção tardia, a partir de uma abordagem histórica sociológica, tendo como exemplo de fato e de direito a política pública adotada no Estado do Rio de Janeiro e analisar a eficácia do Programa e seu impacto na sociedade carioca. O que o estudo da discussão sobre a adoção tardia nos revelou é que a maioria dos autores aborda-o sob uma perspectiva psicológica.

Down to earth thoughts on conserving aquatic genetic diversity

A discussion is presented on the topic of maintaining genetic diversity in aquatic ecosystems, considering the various threats caused by irreversible damage or loss to the environment. The current situation in aquaculture and future prospects regarding the conservation and protection of endangered species are outlined, describing the case of tilapias in Africa as one particular example of fish conservation.

Precious Coral Fisheries of Hawaii and the U.S. Pacific Islands

The precious coral fishery in Hawaii and the Western Pacific consists of one industry but two distinct and separate fisheries. The first is the harvest of black coral by scuba divers from depths of 30-100 m. The second is a fishery for pink and gold coral at depths between 400 and 1500 m and employs either a human-operated submersible that permits selective harvest or tangle net dredges which are nonselective. The modern history of these fisheries date from 1958 until the present. In this paper the ecology, life history. and management of the dominant species that make up these fisheries are reviewed. Research needs of the fisheries and the economic and future prospects of the precious coral industry are also described. At the present, the precious coral jewelry industry in Hawaii (all species) is valued at about $25 million at the retail level.