Isolation and characterization of microsatellites markers for two South American frogs (Leptodactylus bufonius and L. chaquensis) using next generation sequencing

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Next-generation sequencing reveals large connected networks of intra-host HCV variants

Background: Next-generation sequencing (NGS) allows for sampling numerous viral variants from infected patients. This provides a novel opportunity to represent and study the mutational landscape of Hepatitis C Virus (HCV) within a single host.Results: Intra-host variants of the HCV E1/E2 region were extensively sampled from 58 chronically infected patients. After NGS error correction, the average number of reads and variants obtained from each sample were 3202 and 464, respectively. The distance between each pair of variants was calculated and networks were created for each patient, where each node is a variant and two nodes are connected by a link if the nucleotide distance between them is 1. The work focused on large components having > 5% of all reads, which in average account for 93.7% of all reads found in a patient. The distance between any two variants calculated over the component correlated strongly with nucleotide distances (r = 0.9499; p = 0.0001), a better correlation than the one obtained with Neighbour-Joining trees (r = 0.7624; p = 0.0001). In each patient, components were well separated, with the average distance between (6.53%) being 10 times greater than within each component (0.68%). The ratio of nonsynonymous to synonymous changes was calculated and some patients (6.9%) showed a mixture of networks under strong negative and positive selection. All components were robust to in silico stochastic sampling; even after randomly removing 85% of all reads, the largest connected component in the new subsample still involved 82.4% of remaining nodes. In vitro sampling showed that 93.02% of components present in the original sample were also found in experimental replicas, with 81.6% of reads found in both. When syringe-sharing transmission events were simulated, 91.2% of all simulated transmission events seeded all components present in the source.Conclusions: Most intra-host variants are organized into distinct single-mutation components that are: well separated from each other, represent genetic distances between viral variants, robust to sampling, reproducible and likely seeded during transmission events. Facilitated by NGS, large components offer a novel evolutionary framework for genetic analysis of intra-host viral populations and understanding transmission, immune escape and drug resistance.

Geotecnologias para análise da expansão urbana e consequências na APP do Córrego Olinda - Rio Claro/SP

Despite the current Environmental Legislation resolution, concerning the protection of the Permanent Preservation Areas (PPA), be quite rigid, in practice, is observed noncompliance with the minimum limits of protection, especially in urban areas where, historically, the urbanization processes have been executed without compliance with the minimum standards of urban and environmental planning. Given the above, the present study aimed to analyze the urban sprawl evolution at the Olinda stream APP, located in the city of Rio Claro - SP. By means of the visual interpretation of aerial photographs in the GIS/ARCGIS environment, thematic maps of the urban sprawl of the years 1972, 1995 and 2010, as well as the Olinda Stream APP surroundings, were prepared. From the maps, it was possible to measure the occupation density for each scenario and indicate from which period the urbanization process has intensified. It was also possible to quantify the loss of vegetation area and indicate the major environmental problems in the basin of the Olinda stream. Therefore, the development of this research shows its importance, considering that its results can support the public administration, assisting in proper planning of land use and occupation in urban watersheds

Avaliação das áreas de conflito de uso em APP na microbacia Ribeirão do Veado, Piratininga (SP) por meio de geotecnologias

Pós-graduação em Agronomia (Energia na Agricultura) - FCA

HLA-E coding and 3' untranslated region variability determined by next-generation sequencing in two West-African population samples

HLA-E is a non-classical Human Leucocyte Antigen class I gene with immunomodulatory properties. Whereas HLA-E expression usually occurs at low levels, it is widely distributed amongst human tissues, has the ability to bind self and non-self antigens and to interact with NK cells and T lymphocytes, being important for immunosurveillance and also for fighting against infections. HLA-E is usually the most conserved locus among all class I genes. However, most of the previous studies evaluating HLA-E variability sequenced only a few exons or genotyped known polymorphisms. Here we report a strategy to evaluate HLA-E variability by next-generation sequencing (NGS) that might be used to other HLA loci and present the HLA-E haplotype diversity considering the segment encoding the entire HLA-E mRNA (including 5'UTR, introns and the 3'UTR) in two African population samples, Susu from Guinea-Conakry and Lobi from Burkina Faso. Our results indicate that (a) the HLA-E gene is indeed conserved, encoding mainly two different protein molecules; (b) Africans do present several unknown HLA-E alleles presenting synonymous mutations; (c) the HLA-E 3'UTR is quite polymorphic and (d) haplotypes in the HLA-E 3'UTR are in close association with HLA-E coding alleles. NGS has proved to be an important tool on data generation for future studies evaluating variability in non-classical MHC genes.

How to progress from discourse to practice? a new agenda for change in medical schools into the next decade

In the context of medical school instruction, the segmented approach of a focus on specialties and excessive use of technology seem to hamper the development of the professional-patient relationship and an understanding of the ethics of this relationship. The real world presents complexities that require multiple approaches. Engagement in the community where health competence is developed allows extending the usefulness of what is learned. Health services are spaces where the relationship between theory and practice in health care are real and where the social role of the university can be revealed. Yet some competencies are still lacking and may require an explicit agenda to enact. Ten topics are presented for focus here: environmental awareness, involvement of students in medical school, social networks, interprofessional learning, new technologies for the management of care, virtual reality, working with errors, training in management for results, concept of leadership, and internationalization of schools. Potential barriers to this agenda are an underinvestment in ambulatory care infrastructure and community-based health care facilities, as well as in information technology offered at these facilities; an inflexible departmental culture; and an environment centered on a discipline-based medical curriculum.

Avaliação das áreas de conflito de uso em APP da microbacia do alto água fria, Bofete (SP)

The misuse of land by man and is causing serious problems to the environment, resulting in ecological imbalance and depletion of natural resources, especially when it comes to areas of permanent preservation, that ecosystems are essential for balance and water conservation importance . Conflicts of land use is a major cause of silting of rivers and water bodies, causing significant losses in soil and decaying natural water resources both in quantity and in quality. Within this scenario, the planning becomes essential for the control of environmental impacts to the environment factor. This study aimed to evaluate land use conflicts in permanent preservation areas of the stream Água Fria watershed, Bofete (SP) using Geographic Information System and satellite image of LANDSAT - 5 of 2010, scale 1:50000. The results show that 51.16% of the permanent preservation areas of the watershed are conflicting, especially for pasture (88.94%) and reforestation with eucalyptus (11.06%). The GIS IDRISI Selva and Cartalinx along with GIS techniques demonstrated speed and efficiency in identifying, measuring and editing maps of land use, preservation and ongoing conflicts in areas of permanent preservation.

Avaliação das áreas de conflito de uso em APP na microbacia do ribeirão Morro Grande

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Áreas de preservação permanente (APP) na sub-bacia hidrográfica do córrego do Marimbondo, Jales (SP): um estudo das condições ambientais

This work aimed to carry out a study of the environmental conditions of the Permanent Preservation Areas (PPAs) in the sub-basin of Marimbondo Stream in the city of Jales (SP), through remote sensing techniques and taking as the basis Brazilian environmental legislation, the Forest Code Federal Law Nº 12,651/2012. Permanent Preservation Areas are inserted intrinsically improved conditions in the quantity and quality of water in the areas of springs and along water bodies in rural properties. Therefore, we also carried out studies on the new Forest Code compared to the old Federal Law Order no. 4771/1965 and the observation of its application in the area of sub-basin as well as carrying out the simulation. The results of this research allowed toverify the need for direct implementation of the monitoring measures with the Forest Code, and this water management tool in Brazil, which will ensure sustainable management practices of land use and land cover, with direct benefits to water production, mainly for public supply. Also there was a greater need for involvement by the public actors, the Basin Committee of the São José dos Dourados and the municipal government of Jales, in order to truly act aimed at the protection and maintenance of the water body Stream Wasp

Optical Communication Networks for the Next-Generation Internet

Computer and telecommunication networks are changing the world dramatically and will continue to do so in the foreseeable future. The Internet, primarily based on packet switches, provides very flexible data services such as e-mail and access to the World Wide Web. The Internet is a variable-delay, variable- bandwidth network that provides no guarantee on quality of service (QoS) in its initial phase. New services are being added to the pure data delivery framework of yesterday. Such high demands on capacity could lead to a “bandwidth crunch” at the core wide-area network, resulting in degradation of service quality. Fortunately, technological innovations have emerged which can provide relief to the end user to overcome the Internet’s well-known delay and bandwidth limitations. At the physical layer, a major overhaul of existing networks has been envisaged from electronic media (e.g., twisted pair and cable) to optical fibers - in wide-area, metropolitan-area, and even local-area settings. In order to exploit the immense bandwidth potential of optical fiber, interesting multiplexing techniques have been developed over the years.

Dynamic Lightpath Scheduling in Next-Generation WDM Optical Networks

Lightpath scheduling is an important capability in next-generation wavelength-division multiplexing (WDM) optical networks to reserve resources in advance for a specified time period while provisioning end-to-end lightpaths. In this study, we propose an approach to support dynamic lightpath scheduling in such networks. To minimize blocking probability in a network that accommodates dynamic scheduled lightpath demands (DSLDs), resource allocation should be optimized in a dynamic manner. However, for the network users who desire deterministic services, resources must be reserved in advance and guaranteed for future use. These two objectives may be mutually incompatible. Therefore, we propose a two-phase dynamic lightpath scheduling approach to tackle this issue. The first phase is the deterministic lightpath scheduling phase. When a lightpath request arrives, the network control plane schedules a path with guaranteed resources so that the user can get a quick response with the deterministic lightpath schedule. The second phase is the lightpath re-optimization phase, in which the network control plane re-provisions some already scheduled lightpaths. Experimental results show that our proposed two-phase dynamic lightpath scheduling approach can greatly reduce WDM network blocking.

Next Generation Catalogs (NGCs) : Meeting User Needs with Metadata and Search Technology

Recommendations • Become a beta partner with vendor • Test load collections before going live • Update cataloging codes to benefit your community • Don’t expect to drastically change cataloging practices

Making the At Work for Nebraska Report work for IANR: Next Steps

Folks, I am so pleased to have this opportunity to talk with you about the "At Work for Nebraska" report we recently received from Battelle of Columbus, Ohio.

Áreas de preservação permanente (APP) na sub-bacia hidrográfica do córrego do Marimbondo, Jales (SP): um estudo das condições ambientais

This work aimed to carry out a study of the environmental conditions of the Permanent Preservation Areas (PPAs) in the sub-basin of Marimbondo Stream in the city of Jales (SP), through remote sensing techniques and taking as the basis Brazilian environmental legislation, the Forest Code Federal Law Nº 12,651/2012. Permanent Preservation Areas are inserted intrinsically improved conditions in the quantity and quality of water in the areas of springs and along water bodies in rural properties. Therefore, we also carried out studies on the new Forest Code compared to the old Federal Law Order no. 4771/1965 and the observation of its application in the area of sub-basin as well as carrying out the simulation. The results of this research allowed toverify the need for direct implementation of the monitoring measures with the Forest Code, and this water management tool in Brazil, which will ensure sustainable management practices of land use and land cover, with direct benefits to water production, mainly for public supply. Also there was a greater need for involvement by the public actors, the Basin Committee of the São José dos Dourados and the municipal government of Jales, in order to truly act aimed at the protection and maintenance of the water body Stream Wasp