Mobile real-time surveillance of Zika virus in Brazil

Submitted by Ana Maria Fiscina Sampaio ([email protected]) on 2016-11-29T17:59:25Z No. of bitstreams: 1 Faria N R Mobil real....pdf: 357343 bytes, checksum: 5e7279515aa41c01d0c75ed09a95c5b2 (MD5)Approved for entry into archive by Ana Maria Fiscina Sampaio ([email protected]) on 2016-11-29T18:43:34Z (GMT) No. of bitstreams: 1 Faria N R Mobil real....pdf: 357343 bytes, checksum: 5e7279515aa41c01d0c75ed09a95c5b2 (MD5)Made available in DSpace on 2016-11-29T18:43:34Z (GMT). No. of bitstreams: 1 Faria N R Mobil real....pdf: 357343 bytes, checksum: 5e7279515aa41c01d0c75ed09a95c5b2 (MD5) Previous issue date: 2016-09-29University of Oxford. Department of Zoology. South Parks Road. Oxford, UK.University of Sao Paulo. Department of Infectious Diseases and Institute of Tropical Medicine. São Paulo, BrasilMinistry of Health. Evandro Chagas Institute. Center for Technological Innovation. Ananindeua, PA, Brasil / University of Texas Medical Branch. Department of Pathology. Galveston, USAFundação Gonçalo Moniz, Centro de Pesquisas Gonçalo Moniz. Salvador, BA, BrasilUniversity of Birmingham. Institute of Microbiology and Infection. Birmingham, UK.The World Health Organization has declared Zika virus an international public health emergency. Knowledge of Zika virus genomic epidemiology is currently limited due to challenges in obtaining and processing samples for sequencing. The ZiBRA project is a United Kingdom-Brazil collaboration that aims to improve this situation using new sequencing technologies

Systematic investigation of projectile fragmentation using beams of unstable B and C isotopes

Publisher's Version/PDFBackground: Models describing nuclear fragmentation and fragmentation fission deliver important input for planning nuclear physics experiments and future radioactive ion beam facilities. These models are usually benchmarked against data from stable beam experiments. In the future, two-step fragmentation reactions with exotic nuclei as stepping stones are a promising tool for reaching the most neutron-rich nuclei, creating a need for models to describe also these reactions. Purpose: We want to extend the presently available data on fragmentation reactions towards the light exotic region on the nuclear chart. Furthermore, we want to improve the understanding of projectile fragmentation especially for unstable isotopes. Method: We have measured projectile fragments from [superscript 10,12−18]C and [superscript 10−15]B isotopes colliding with a carbon target. These measurements were all performed within one experiment, which gives rise to a very consistent data set. We compare our data to model calculations. Results: One-proton removal cross sections with different final neutron numbers (1pxn) for relativistic [superscript 10,12−18]C and [superscript 10−15]B isotopes impinging on a carbon target. Comparing model calculations to the data, we find that the EPAX code is not able to describe the data satisfactorily. Using ABRABLA07 on the other hand, we find that the average excitation energy per abraded nucleon needs to be decreased from 27 MeV to 8.1 MeV. With that decrease ABRABLA07 describes the data surprisingly well. Conclusions: Extending the available data towards light unstable nuclei with a consistent set of new data has allowed a systematic investigation of the role of the excitation energy induced in projectile fragmentation. Most striking is the apparent mass dependence of the average excitation energy per abraded nucleon. Nevertheless, this parameter, which has been related to final-state interactions, requires further study

Efeito de uma competi??o escolar de futebol com jogos em dias consecutivos no estado de recupera??o de jogadores sub-19.

The present study aimed to evaluate the effect of a school soccer competition with consecutive day games on the recovery status of U-19 players. Thirty-one school athletes (17.1?1.1 years) who played a U-19 school soccer competition (composed of two groups of four soccer teams each, followed by semifinals and final) were randomly evaluated. Games lasted 70 min (two periods of 35 min with 15 min rest interval), and they were played on consecutive days with 24 h between each game. Delayed onset muscle soreness (DOMS) and Total Quality Recovery (TQR) were measured before group phase games (n= 31) and semifinals games (n= 18). The internal game load was measured by the session rate of perceived exertion (session-RPE) method. TQR was higher before the first game when compared to the other games (p< 0.001). DOMS increased after the first game and did not return to baseline before the fourth game. Both session-RPE and internal load of the fourth game were higher than in the other games (p< 0.001). In addition, there was no correlation between internal game load and TQR (p> 0.05). The monotony observed during the evaluated period was 3.1?2.0 AU. The results indicate that the 24 h rest period seems to be insufficient for complete recovery of U-19 soccer school athletes, suggesting the organization of U-19 school soccer competitions with higher rest interval between games and search for methods to increase the recovery rate.O presente estudo objetivou analisar o efeito de uma competi??o escolar de futebol com jogos em dias consecutivos no estado de recupera??o f?sica de jogadores sub-19. Foram avaliados, de forma aleat?ria, 31 atletas escolares (17,1?1,1 anos) participantes de uma competi??o escolar de futebol de campo sub-19, composta de duas chaves com quatro equipes cada, seguido de semifinais e final. Os jogos tiveram 70 min de dura??o (dois tempos de 35 min com 15 min de intervalo), e foram realizados em dias consecutivos com intervalo de 24h entre cada jogo. Foi medida a dor muscular de in?cio tardio (DOMS) e Qualidade Total de Recupera??o (QTR) antes de cada jogo da primeira fase (n= 31) e da semifinal (n=18). A carga interna dos jogos foi medida a pelo m?todo da percep??o subjetiva do esfor?o da sess?o (PSE-sess?o). A QTR foi maior antes do primeiro jogo em compara??o com os demais jogos (p< 0.001). A DOMS aumentou ap?s o primeiro jogo e n?o retornou aos valores basais antes do quarto jogo (p< 0.001). A PSE-sess?o e a carga interna do quarto jogo foram maiores que as dos demais jogos (p< 0,001). Em adi??o, n?o houve correla??o entre a carga interna do jogo e a QTR (p> 0,05). A monotonia encontrada no per?odo avaliado foi de 3,1?2.0 UA. Os resultados indicam que o per?odo de 24h parece ser insuficiente para a completa recupera??o de atletas escolares de futebol sub-19, sugerindo a organiza??o de competi??es escolares de futebol sub-19 com maior intervalo entre os jogos e busca por m?todos que acelerem a recupera??o

A computational method for the identification of dengue, zika and chikungunya virus species and genotypes

In recent years, an increasing number of outbreaks of Dengue, Chikungunya and Zika viruses have been reported in Asia and the Americas. Monitoring virus genotype diversity is crucial to understand the emergence and spread of outbreaks, both aspects that are vital to develop effective prevention and treatment strategies. Hence, we developed an efficient method to classify virus sequences with respect to their species and sub-species (i.e. serotype and/or genotype). This tool provides an easy-to-use software implementation of this new method and was validated on a large dataset assessing the classification performance with respect to whole-genome sequences and partial-genome sequences.publishersversionpublishe

Systematic investigation of projectile fragmentation using beams of unstable B and C isotopes

Background: Models describing nuclear fragmentation and fragmentation fission deliver important input for planning nuclear physics experiments and future radioactive ion beam facilities. These models are usually benchmarked against data from stable beam experiments. In the future, two-step fragmentation reactions with exotic nuclei as stepping stones are a promising tool for reaching the most neutron-rich nuclei, creating a need for models to describe also these reactions. Purpose: We want to extend the presently available data on fragmentation reactions towards the light exotic region on the nuclear chart. Furthermore, we want to improve the understanding of projectile fragmentation especially for unstable isotopes. Method: We have measured projectile fragments from C10,12-18 and B10-15 isotopes colliding with a carbon target. These measurements were all performed within one experiment, which gives rise to a very consistent data set. We compare our data to model calculations. Results: One-proton removal cross sections with different final neutron numbers (1pxn) for relativistic C10,12-18 and B10-15 isotopes impinging on a carbon target. Comparing model calculations to the data, we find that the epax code is not able to describe the data satisfactorily. Using abrabla07 on the other hand, we find that the average excitation energy per abraded nucleon needs to be decreased from 27 MeV to 8.1 MeV. With that decrease abrabla07 describes the data surprisingly well. Conclusions: Extending the available data towards light unstable nuclei with a consistent set of new data has allowed a systematic investigation of the role of the excitation energy induced in projectile fragmentation. Most striking is the apparent mass dependence of the average excitation energy per abraded nucleon. Nevertheless, this parameter, which has been related to final-state interactions, requires further study

Multiplex PCR method for MinION and Illumina sequencing of Zika and other virus genomes directly from clinical samples

Genome sequencing has become a powerful tool for studying emerging infectious diseases; however, genome sequencing directly from clinical samples (i.e., without isolation and culture) remains challenging for viruses such as Zika, for which metagenomic sequencing methods may generate insufficient numbers of viral reads. Here we present a protocol for generating coding-sequence-complete genomes, comprising an online primer design tool, a novel multiplex PCR enrichment protocol, optimized library preparation methods for the portable MinION sequencer (Oxford Nanopore Technologies) and the Illumina range of instruments, and a bioinformatics pipeline for generating consensus sequences. The MinION protocol does not require an Internet connection for analysis, making it suitable for field applications with limited connectivity. Our method relies on multiplex PCR for targeted enrichment of viral genomes from samples containing as few as 50 genome copies per reaction. Viral consensus sequences can be achieved in 1-2 d by starting with clinical samples and following a simple laboratory workflow. This method has been successfully used by several groups studying Zika virus evolution and is facilitating an understanding of the spread of the virus in the Americas. The protocol can be used to sequence other viral genomes using the online Primal Scheme primer designer software. It is suitable for sequencing either RNA or DNA viruses in the field during outbreaks or as an inexpensive, convenient method for use in the lab