Методичні вказівки до виконання лабораторних робіт з курсу "Сучасні технології розробки Інтернет-застосунків"

Методичні вказівки містять теоретичний матеріал та завдання до лабораторних робіт з курсу "Сучасні технології розробки Інтернет-застосунків" для студентів спеціальності "Прикладна та комп'ютерна лінгвістика". Навчально-методичне видання призначено для набуття необхідної методичної допомоги при виконанні лабораторних робіт. Методичний матеріал охоплює широке коло питань, пов'язаних з використанням серверної мови РНР та технологій MySQL для розробки web-додатків

Different but overlapping populations of Strongyloides stercoralis in dogs and humans-Dogs as a possible source for zoonotic strongyloidiasis

Strongyloidiasis is a much-neglected soil born helminthiasis caused by the nematode Strongyloides stercoralis. Human derived S. stercoralis can be maintained in dogs in the laboratory and this parasite has been reported to also occur in dogs in the wild. Some authors have considered strongyloidiasis a zoonotic disease while others have argued that the two hosts carry host specialized populations of S. stercoralis and that dogs play a minor role, if any, as a reservoir for zoonotic S. stercoralis infections of humans. We isolated S. stercoralis from humans and their dogs in rural villages in northern Cambodia, a region with a high incidence of strongyloidiasis, and compared the worms derived from these two host species using nuclear and mitochondrial DNA sequence polymorphisms. We found that in dogs there exist two populations of S. stercoralis, which are clearly separated from each other genetically based on the nuclear 18S rDNA, the mitochondrial cox1 locus and whole genome sequence. One population, to which the majority of the worms belong, appears to be restricted to dogs. The other population is indistinguishable from the population of S. stercoralis isolated from humans. Consistent with earlier studies, we found multiple sequence variants of the hypervariable region I of the 18 S rDNA in S. stercoralis from humans. However, comparison of mitochondrial sequences and whole genome analysis suggest that these different 18S variants do not represent multiple genetically isolated subpopulations among the worms isolated from humans. We also investigated the mode of reproduction of the free-living generations of laboratory and wild isolates of S. stercoralis. Contrary to earlier literature on S. stercoralis but similar to other species of Strongyloides, we found clear evidence of sexual reproduction. Overall, our results show that dogs carry two populations, possibly different species of Strongyloides. One population appears to be dog specific but the other one is shared with humans. This argues for the strong potential of dogs as reservoirs for zoonotic transmission of S. stercoralis to humans and suggests that in order to reduce the exposure of humans to infective S. stercoralis larvae, dogs should be treated for the infection along with their owners

The Repository Chemotion: Infrastructure for Sustainable Research in Chemistry

We describe the development of a repository for chemistry research data (called Chemotion) that provides solutions for current challenges to store research data in a feasible manner, allowing the conservation of domain‐specific information in a machine‐readable format. A main advantage of the repository Chemotion is the comprehensive functionality, offering options to collect, prepare and reuse data with discipline specific methods and data processing tools. For selected analytical data, automated procedures are implemented to facilitate the curation of the data. Chemotion provides functions for a feasible data publishing process including automated Digital Object Identifier (DOI) generation and workflows for peer reviewing of the submissions, including embargo settings. The described developments were used to establish a research‐data infrastructure to build a new community‐driven repository as a comprehensive alternative to commercial databases

Consortium Proposal NFDI-MatWerk

This is the official proposal the NFDI-consortium NFDI-MatWerk submitted to the DFG within the request for funding the project. Visit www.dfg.de/nfdi for more infos on the German National Research Data Infrastructure (Nationale Forschungsdateninfrastruktur - NFDI) initiative. Visit www.nfdi-matwerk.de for last infos about the project NFDI-MatWerk

Comparative analysis of methylation-specific PCR(MSP), Southern blot (SB) and FISH in molecular genetic diagnosis of patients with clinical picture suggestive of Prader-Willi or Angelman syndromes

Introdução: Prader-Willi (SPW) e Angelman (SA) são síndromes clinicamente distintas, causadas pela perda de expressão de genes na região cromossômica 15q11.2-q13, de origem paterna ou materna, respectivamente. Ambas compartilham os mesmos métodos diagnósticos. Nossos objetivos foram: a) analisar por PCR metilação-específica (MSP) pacientes com suspeita clínica de SPW/SA; b) comparar resultados de diferentes metodologias de diagnóstico molecular; c) aplicar a técnica MSP na rotina assistencial de pacientes encaminhados ao Serviço de Genética Médica/Hospital de Clínicas de Porto Alegre (SGM/HCPA). Métodos: Foram analisados 123 pacientes com suspeita clínica de SPW (n = 71) ou SA (n = 52) por MSP. Desses, 79 possuíam análise prévia por hibridação in situ fluorescente (FISH) e/ou Southern blot (SB). Resultados: Foram detectados 21 casos positivos – 15 de SPW (12,19%) e 6 de SA (4,88%). Nove pacientes tiveram etiologia molecular determinada, sendo sete com diagnóstico de SPW (quatro dissomias uniparentais – UPD15 materna – e três deleções na região 15q11-13) e dois com diagnóstico de SA (um com UPD15 paterna e um com deleção na região 15q11-13). Foram observados resultados equivalentes entre MSP e SB e resultados discrepantes entre MSP e FISH (n = 4) Foram padronizados dois protocolos de MSP para confirmação dos resultados e controle interno de qualidade. Conclusão: O perfil de detecção de cada técnica varia de acordo com o mecanismo etiológico presente. A análise por MSP detecta alterações no padrão de metilação geradas por deleção, UPD e defeitos de imprinting, sem identificar o mecanismo etiológico responsável. Contudo, mostrou ser eficiente para confirmação do diagnóstico clínico e screening dos pacientes com suspeita clínica sugestiva de SPW e SA. Diante de resultados positivos, é importante a identificação do mecanismo molecular subjacente para correlação genótipo-fenótipo e determinação do risco de recorrência familiar, fundamental para o aconselhamento genético.Introduction: Prader-Willi (PWS) and Angelman (AS) are clinically different syndromes caused by loss of expression of genes located on the chromosome 15q11.2-q13, of paternal or maternal origin, respectively. Both syndromes have the same diagnostic methods. The aims of the present study were: a) to perform a molecular analysis of 123 patients with clinical findings suggestive of PWS or AS using methylation-specific PCR (MSP); b) to compare the results obtained using different molecular diagnostic methodologies; c) to standardize MSP to be used in the routine care of patients at Medical Genetics Service/Hospital de Clínicas de Porto Alegre (SGM/HCPA). Methods: 123 patients with clinical findings suggestive of PWS (n = 71) or AS (n = 52) were analyzed by MSP. 79 had undergone previous laboratory analysis by fluorescence in situ hybridization (FISH) and/or Southern blot (SB). Results: MSP detected 21 positive cases – 15 PWS (12,19%) and 6 AS (4,88%). Molecular etiology was determined in 9 patients only – 7 were diagnosed with PWS (4 had uniparental disomy – maternal UPD15 – and 3 had deletions at 15q11-13) and 2 were diagnosed with AS (1 of paternal UPD15 and 1 deletion at 15q11-13) Comparing both methodologies, it was possible to observe concordant results between MSP and SB and discordant results between MSP and FISH (n = 4). We standardized two MSP methods in order to confirm the results and for internal quality control. Conclusion: The resulting profile of each technique varies according to the existing etiological mechanism. The methylation analysis by MSP technique detects changes on methylation pattern caused by deletion, UPD and imprinting defects, but it does not identify the responsible etiologic mechanism. Nevertheless, it is effective to confirm the suggestive clinical diagnosis of PWS/AS and to be used as a screening protocol. If positive results are observed, it is important to identify the underlying molecular mechanism to determine genotype-phenotype correlations and the risk of familial recurrence, which is essential for genetic counseling

The Glasgow consensus on the delineation between pesticide emission inventory and impact assessment for LCA

Purpose: Pesticides are applied to agricultural fields in order to optimise crop yield and their global use is substantial. Their consideration in Life cycle assessment (LCA) is currently affected by important inconsistencies between the emission inventory and impact assessment phases of LCA. A clear definition of the delineation between the product system model (life cycle inventory, technosphere) and the natural environment (life cycle impact assessment, ecosphere) is currently missing and could be established via consensus building. Methods: A workshop held on the 11 May 2013, in Glasgow, UK, back to back with the 23rd SETAC Europe meeting had the goal of establishing consensus and creating clear guidelines where the boundary between the emission inventory and the impact characterisation model should be set in all three spatial dimensions and time when considering application of substances to an open agricultural field or in greenhouses, and consequent emissions to the natural environment and their potential impacts. More than 30 specialists in agrifood LCI, LCIA, risk assessment, and ecotoxicology, representing industry, government, and academia from 15 countries and four continents met to discuss and reach consensus. The resulting guidelines target LCA practitioners, data (base) and characterisation method developers, and decision makers. Results and discussion: Although, the initial goal was to define recommendations concerning boundaries between technosphere and ecosphere, it became clear that these strongly depend on goal and scope of an LCA study. Instead, the focus was on defining a clear interface between LCI and LCIA, capable of supporting any goal and scope requirements while avoiding double counting or exclusion of important emission flows and their potential impacts. Consensus was reached accordingly on distinct sets of recommendations for LCI and LCIA respectively, recommending for example that buffer zones should be considered as part of the crop production system and the change in yield per ha be considered. While the spatial dimensions of the field were not fixed, the temporal boundary between dynamic LCI fate modelling and steady-state LCIA fate modelling needs to be defined. Conclusions and recommendations: For pesticides application, the inventory should report: pesticide identification, crop, mass applied of each active ingredient, application method or formulation type, presence of buffer zones (y/n), location/country, application time in days before harvest and crop growth stage during application, adherence with Good Agricultural Practice (GAP), and whether the field is considered part of the technosphere or the ecosphere. Additionally, emission fractions to defined environmental media on-field and off-field should be reported. For LCIA, the directly concerned impact categories were identified as well as a list of relevant fate and exposure processes. Next steps and future work were identified: 1) establishing default emission fractions to environmental media for integration into LCI databases, and 2) interaction among impact model developers to extend current methods with new elements/processes mentioned in the recommendations, including targeted technical workshops on “how to” model specific processes.JRC.H.8-Sustainability Assessmen

Genetic Contribution to Alcohol Dependence: Investigation of a Heterogeneous German Sample of Individuals with Alcohol Dependence, Chronic Alcoholic Pancreatitis, and Alcohol-Related Cirrhosis

The present study investigated the genetic contribution to alcohol dependence (AD) using genome-wide association data from three German samples. These comprised patients with: (i) AD; (ii) chronic alcoholic pancreatitis (ACP); and (iii) alcohol-related liver cirrhosis (ALC). Single marker, gene-based, and pathway analyses were conducted. A significant association was detected for the ADH1B locus in a gene-based approach (puncorrected = 1.2 × 10−6; pcorrected = 0.020). This was driven by the AD subsample. No association with ADH1B was found in the combined ACP + ALC sample. On first inspection, this seems surprising, since ADH1B is a robustly replicated risk gene for AD and may therefore be expected to be associated also with subgroups of AD patients. The negative finding in the ACP + ALC sample, however, may reflect genetic stratification as well as random fluctuation of allele frequencies in the cases and controls, demonstrating the importance of large samples in which the phenotype is well assessed

Endstation for ultrafast magnetic scattering experiments at the free-electron laser in Hamburg

This content may be downloaded for personal use only. Any other use requires prior permission of the author and AIP Publishing. This material originally appeared in Review of Scientific Instruments 84, 013906 (2013) and may be found at https://doi.org/10.1063/1.4773543.An endstation for pump–probe small-angle X-ray scattering (SAXS) experiments at the free-electron laser in Hamburg (FLASH) is presented. The endstation houses a solid-state absorber, optical incoupling for pump–probe experiments, time zero measurement, sample chamber, and detection unit. It can be used at all FLASH beamlines in the whole photon energy range offered by FLASH. The capabilities of the setup are demonstrated by showing the results of resonant magnetic SAXS measurements on cobalt-platinum multilayer samples grown on freestanding Si3N4 membranes and pump-laser-induced grid structures in multilayer samples.BMBF, 05K10GU4, Verbundprojekt: FSP 301 - FLASH: Nanoskopische Systeme. Teilprojekt 6: Aufbau einer Plattform für Experimente mit ultimativer Orts- und Zeitauflösung unter Ausnutzung der kohärenten Beugung weicher Röntgenstrahlung an PETRA III und FLASHDFG, 13002249, SFB 668: Magnetismus vom Einzelatom zur NanostrukturDFG, 170620586, SFB 925: Licht-induzierte Dynamik und Kontrolle korrelierter Quantensystem

Meta-analysis of epigenome-wide associations between DNA methylation at birth and childhood cognitive skills

Cognitive skills are a strong predictor of a wide range of later life outcomes. Genetic and epigenetic associations across the genome explain some of the variation in general cognitive abilities in the general population and it is plausible that epigenetic associations might arise from prenatal environmental exposures and/or genetic variation early in life. We investigated the association between cord blood DNA methylation at birth and cognitive skills assessed in children from eight pregnancy cohorts within the Pregnancy And Childhood Epigenetics (PACE) Consortium across overall (total N = 2196), verbal (total N = 2206) and non-verbal cognitive scores (total N = 3300). The associations at single CpG sites were weak for all of the cognitive domains investigated. One region near DUSP22 on chromosome 6 was associated with non-verbal cognition in a model adjusted for maternal IQ. We conclude that there is little evidence to support the idea that variation in cord blood DNA methylation at single CpG sites is associated with cognitive skills and further studies are needed to confirm the association at DUSP22.Peer reviewe