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Review of current diagnostic methods and advances in Helicobacter pylori diagnostics in the era of next generation sequencing

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World Journal of Gastroenterology 2019年第32期25卷 4629-4660页

作者： Daniel Pohl Peter M Keller Valentine Bordier karoline wagner Division of Gastroenterology University Hospital of ZurichZurich 8006Switzerland Institute for Infectious Diseases University of BernBern 3010Switzerland Institute of Medical Microbiology University of ZurichZurich 8006Switzerland

Helicobacter pylori(***)infection is highly prevalent in the human population and may lead to severe gastrointestinal pathology including gastric and duodenal ulcers,mucosa associated tissue lymphoma and gastric *** recent years,an alarming increase in antimicrobial resistance and subsequently failing empiric *** eradication therapies have been noted worldwide,also in many European ***,rapid and accurate determination of ***’s antibiotic susceptibility prior to the administration of eradication regimens becomes ever more ***,detection of *** and its antimicrobial resistance is done by culture and phenotypic drug susceptibility testing that are cumbersome with a long *** advances in diagnostics provide new tools,like real-time polymerase chain reaction(PCR)and line probe assays,to diagnose *** infection and antimicrobial resistance to certain antibiotics,directly from clinical ***,high-throughput whole genome sequencing technologies allow the rapid analysis of the pathogen’s genome,thereby allowing identification of resistance mutations and associated antibiotic *** the first part of this review,we will give an overview on currently available diagnostic methods for detection of *** and its drug resistance and their implementation in *** *** second part of the review focusses on the use of next generation sequencing technology in *** *** this end,we conducted a literature search for original research articles in English using the terms“Helicobacter”,“transcriptomic”,“transcriptome”,“next generation sequencing”and“whole genome sequencing”.This review is aimed to bridge the gap between current diagnostic practice(histology,rapid urease test,*** culture,PCR and line probe assays)and new sequencing technologies and their potential implementation in diagnostic laboratory settings in order to complement the currently

关键词： Helicobacter pylori Advances in diagnostics Next generation sequencing Whole genome sequencing Clinical management

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Geostatistical seismic inversion and 3D modelling of metric flow units,porosity and permeability in Brazilian presalt reservoir

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Petroleum Science 2024年第3期21卷 1699-1718页

作者： Rodrigo Penna wagner Moreira Lupinacci Exploratory Interpretation and Reservoir Characterization Group(GIECAR) Department of Geology and GeophysicsUniversidade Federal FluminenseNiteroiRJ24210-346Brazil Petrobras Rio de JaneiroRJ20031-912Brazil

Flow units(FU)rock typing is a common technique for characterizing reservoir flow behavior,producing reliable porosity and permeability estimation even in complex geological ***,the lateral extrapolation of FU away from the well into the whole reservoir grid is commonly a difficult task and using the seismic data as constraints is rarely a subject of *** paper proposes a workflow to generate numerous possible 3D volumes of flow units,porosity and permeability below the seismic resolution limit,respecting the available seismic data at larger *** methodology is used in the Mero Field,a Brazilian presalt carbonate reservoir located in the Santos Basin,who presents a complex and heterogenic geological setting with different sedimentological processes and diagenetic *** generated metric flow units using the conventional core analysis and transposed to the well log ***,given a Markov chain Monte Carlo algorithm,the seismic data and the well log statistics,we simulated acoustic impedance,decametric flow units(DFU),metric flow units(MFU),porosity and permeability volumes in the metric *** aim is to estimate a minimum amount of MFU able to calculate realistic scenarios porosity and permeability scenarios,without losing the seismic lateral *** other words,every porosity and permeability volume simulated produces a synthetic seismic that match the real seismic of the area,even in the metric *** achieved 3D results represent a high-resolution fluid flow reservoir modelling considering the lateral control of the seismic during the process and can be directly incorporated in the dynamic characterization workflow.

关键词： Flowunits Geostatistical inversion Presalt reservoir 3D reservoir modelling Petrophysical modelling

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Ultrahigh temporal contrast performance of the PHELIX petawatt facility

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High Power Laser Science and Engineering 2016年第4期4卷 1-8页

作者： V.Bagnoud F.wagner Plasma physics dep. GSI Helmholtzzentrum für Schwerionenforschung GmbH Helmholtz Institute Jena

We report on the temporal contrast performance of the PHELIX facility in view of the requirements imposed by solidtarget interaction experiments. The requirement analysis for the nanosecond and picosecond temporal contrast is derived from empirical data and simple theoretical modeling, while the realization shows that using an ultrafast optical parametric amplifier and plasma mirrors enables meeting this specification.

关键词： amplified spontaneous emission chirped-pulse amplification optical parametric amplification temporal contrast

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Mainstreaming Early Warning Systems in Development and Planning Processes: Multilevel Implementation of Sendai Framework in Indus and Sahel

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International Journal of Disaster Risk Science 2015年第2期6卷 189-199页

作者： Asim Zia Courtney Hammond wagner Department of Community Development and Applied Economics University of Vermont Department of Computer Science University of Vermont Rubenstein School of the Environment and Natural Resources University of Vermont

The third UN World Congress on Disaster Risk Reduction, held in Sendai, Japan in March 2015, agreed on a new framework to guide disaster risk reduction policy and practice for the next 15 years. The Sendai Framework for Disaster Risk Reduction 2015–2030(SFDRR) leaves important implementation issues unspecified and potentially creates both problems and opportunities for complex,multilevel governance systems in coping with hazards and disastrous events. Early warning systems(EWS), if built into the mainstream of planning for development and disaster relief and recovery, could present a significant opportunity to realize many SFDRR goals. We explore the complexities of using hydrometeorological EWS to prepare for drought and flood disasters in the densely populated communities of Pakistan’s Indus River Basin in contrast to the African Sahel’s less densely settled grasslands. Multilevel governance systems are often dominated by a topdown, technocentric, centralized management bias and have great difficulty responding to the needs of peripheral and vulnerable populations. People-centered, bottom-up approaches that incorporate disaggregated communities with local knowledge into a balanced, multilevel disaster risk management and governance structure have adramatically better chance of realizing the SFDRR goals for disaster risk reduction.

关键词： Early warning systems Infrastructure development Land-use planning Policy implementation Risk governance Sendai Framework Science-policy interface

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Scale up of reactors for carbon dioxide reduction

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Frontiers of Chemical Science and Engineering 2023年第1期17卷 116-122页

作者： Andrew Nattestad Klaudia wagner Gordon G.Wallace Intelligent Polymer Research Institute and ARC Centre of Excellence for Electromaterials Science University of WollongongWollongong NSW 2522Australia School of Chemistry Monash UniversityClayton VIC 3800Australia

In recent times there has been a great deal of interest in the conversion of carbon dioxide into more useful chemical *** the other hand,the translation of these developments in electrochemical reduction of carbon dioxide from the laboratory bench to practical scale remains an underexplored *** we examine some of the major challenges,demonstrating some promising strategies towards such scale-up,including increased electrode area and stacking of electrode pairs in different *** observed that increasing the electrode area from 1 to 10 cm^(2) led to only a 4%drop in current density,with similarly small penalties realised when stacking sub-cells together.

关键词： CO_(2)reduction electrochemical cell electrosynthesis upscaling

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Cross Correlators and Galilean Invariance in Fluctuating Ideal Gas Lattice Boltzmann Simulations

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Communications in Computational Physics 2011年第5期9卷 1315-1322页

作者： Goetz Kaehler Alexander wagner Department of Physics North Dakota State UniversityFargoND 58108USA

We analyze the Lattice Boltzmann method for the simulation of fluctuating hydrodynamics by Adhikari et al.[***.,71(2005),473-479]and find that it shows excellent agreement with theory even for small wavelengths as long as a stationary system is *** is in contrast to other finite difference and older lattice Boltzmann implementations that show convergence only in the limit of large *** particular cross correlators vanish to less than 0.5%.For larger mean velocities,however,Galilean invariance violations manifest themselves.

关键词： Lattice Boltzmann fluctuations Galilean invariance

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The hidden half comes into the spotlight: Peeking inside the black box of root developmental phases

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Plant Communications 2022年第1期3卷 36-52页

作者： Joao Antonio Siqueira wagner C.Otoni wagner L.Araujo Departamento de Biologia Vegetal Universidade Federal de Vic¸osaVic¸osaMG 36570-900Brazil

Efficient use of natural resources(e.g.,light,water,and nutrients)can be improved with a tailored developmental program that maximizes the lifetime and fitness of *** plant shoots,a developmental phase represents a time window in which the meristem triggers the development of unique morphological and physiological traits,leading to the emergence of leaves,flowers,and *** developmental phases in plant shoots have been shown to enhance food production in crops,this phenomenon has remained poorly investigated in *** light of recent advances,we suggest that root development occurs in three main phases:root apical meristem appearance,foraging,and *** provide compelling evidence suggesting that these phases are regulated by at least four developmental pathways:autonomous,non-autonomous,hormonal,and *** developmental pathways differentially coordinate organ plasticity,promoting morphological alterations,tissue regeneration,and cell death ***,we suggest how nutritional checkpoints may allow progression through the developmental phases,thus completing the root life *** insights highlight novel and exciting advances in root biology that may help maximize the productivity of crops through more sustainable agriculture and the reduced use of chemical fertilizers.

关键词： developmental transitions plasticity cell fates nutritional checkpoints root development root clock

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New insights into the vitamin D requirements during pregnancy

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Bone Research 2017年第3期5卷 161-176页

作者： Bruce W Hollis Carol L wagner Department of Pediatrics Darby Children's Research Institute Medical University of South Carolina

Pregnancy represents a dynamic period with physical and physiological changes in both the mother and her developing fetus. The dramatic 2-3 fold increase in the active hormone 1,25（OH）2D concentrations during the early weeks of pregnancy despite minimal increased calcium demands during that time of gestation and which are sustained throughout pregnancy in both the mother and fetus suggests an immunomodulatory role in preventing fetal rejection by the mother. While there have been numerous observational studies that support the premise of vitamin D＇s role in maintaining maternal and fetal well-being, until recently, there have been few randomized clinical trials with vitamin D supplementation. One has to exhibit caution, however, even with RCTs, whose results can be problematic when analyzed on an intent-to-treat basis and when there is high non-adherence to protocol （as if often the case）, thereby diluting the potential good or harm of a given treatment at higher doses. As such, a biomarker of a drug or in this case ＂vitamin＂ or pre-prohormone is better served. For these reasons, the effect of vitamin D therapies using the biomarker circulating 25（OH）D is a far better indicator of true ＂effect.＂ When pregnancy outcomes are analyzed using the biomarker 25（OH）D instead of treatment dose, there are notable differences in maternal and fetal outcomes across diverse racial/ethnic groups, with improved health in those women who attain a circulating 25（OH）D concentration of at least 100 nmol. L-1 （40 ng. mL-1）. Because ,an important issue is the timing or initiation of vitamin D treatment/supplementation, and given the potential effect of vitamin D on placental gene expression and its effects on inflammation within the placenta, it appears crucial to start vitamin D treatment before placentation （and trophoblast invasion）; however, this question remains unanswered. Additional work is needed to decipher the vitamin D requirements of pregnant women and the optimal timing of s

关键词： New insights into the vitamin D requirements during pregnancy

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CHO cell cytotoxicity and genotoxicity analyses of disinfection by-products： An updated review

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Journal of Environmental Sciences 2017年第8期29卷 64-76页

作者： Elizabeth D.wagner Michael J.Plewa Safe Global Water Institute University of Illinois at Urbana-Champaign 1101 W Peabody Dr. Urbana IL 61801 United States Department of Crop Sciences University of Illinois at Urbana-Champaign 1101 W Peabody Dr. Urbana IL 61801 United States

The disinfection of drinking water is an important public health service that generates high quality, safe and palatable tap water. The disinfection of drinking water to reduce waterborne disease was an outstanding public health achievement of the 20 th *** unintended consequence is the reaction of disinfectants with natural organic matter,anthropogenic contaminants and bromide/iodide to form disinfection by-products（DBPs）.A large number of DBPs are cytotoxic, neurotoxic, mutagenic, genotoxic, carcinogenic and teratogenic. Epidemiological studies demonstrated low but significant associations between disinfected drinking water and adverse health effects. The distribution of DBPs in disinfected waters has been well defined by advances in high precision analytical chemistry. Progress in the analytical biology and toxicology of DBPs has been *** objective of this review was to provide a detailed presentation of the methodology for the quantitative, comparative analyses on the induction of cytotoxicity and genotoxicity of103 DBPs using an identical analytical biological platform and endpoints. A single Chinese hamster ovary cell line was employed in the assays. The data presented are derived from papers published in the literature as well as additional new data and represent the largest direct quantitative comparison on the toxic potency of both regulated and emerging *** data may form the foundation of novel research to define the major forcing agents of DBP-mediated toxicity in disinfected water and may play an important role in achieving the goal of making safe drinking water better.

关键词： DBPs Mammalian cell cytotoxicity Mammalian cell genotoxicity

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Visual Translations： Medicine, Art, China and the West

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Fudan Journal of the Humanities and Social Sciences 2015年第2期8卷 193-234页

作者： Corinna wagner Department of English College of Humanities University of Exeter Queen's BuildingExeter EX4 4QH UK

In the history of medicine, relatively little attention has been paid to the way medical illustration circulated globally---or to the issues raised by the cultural ＂translation＂ of such images. My goal here is to flesh out some of the history of this circulation and translation by exploring the aesthetic and medical connections be- tween two specific anatomical collections, both housed at the Gordon Pathology Museum at Guy＇s Hospital, London. The Joseph Towne collection of anatomical waxes and the Lam Qua paintings of the patients of medical missionary Peter Parker were both produced in the nineteenth century. Significantly, the two collections were part of related but culturally specific shifts in the way bodies （and diseased bodies） were viewed, represented, understood and treated. I explore some of the convergences and divergences between Western and Chinese medical and artistic priorities and will address some of the issues raised by them. These two collections are important, I argue, because they demonstrate how aesthetic considerations shape medical knowledge and wider attitudes about the human body.

关键词： History of medicine Chinese medicine Art Aesthetics Anatomy Visuality Pathology Medical illustration Medical humanities Body studies

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