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Quasispecies dynamics in main core epitopes of hepatitis B virus by ultra-deep-pyrosequencing

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World Journal of Gastroenterology 2012年第42期18卷 6096-6105页

作者： Maria Homs Maria Buti David Tabernero Josep Quer Alex Sanchez Noelia Corral Rafael Esteban francisco rodriguez-Frias Network Medical Research Center Hepatic and Digestive Diseases(CIBERehd)Institute of Health Carlos Ⅲ08036 BarcelonaSpain Department of Biochemistry Vall d'Hebron HospitalAutonomous University of Barcelona08035 BarcelonaSpain Department of Hepatology Vall d' Hebron HospitalAutonomous University of Barcelona08035 BarcelonaSpain Statistics and Bioinformatics Unit Research InstituteVall d'Hebron Hospital08035 BarcelonaSpain

AIM:To investigate the variability of the main immunodominant motifs of hepatitis B virus(HBV) core gene by ultra-deep-pyrosequencing(UDPS).METHODS:Four samples(2 genotype A and 2 genotype D) from 4 treatment-na ve patients were assessed for baseline *** additional samples from one patient(patient 4,genotype D) were selected for analysis:one sample corresponded to a 36-mo treatment-free period from baseline and the other to the time of viral breakthrough after 18 mo of lamivudine *** HBV region analyzed covered amino acids 40 to 95 of the core gene,and included the two main epitopic regions,Th50-69 and *** was carried out in the Genome Sequencer FLX system(454 Life Sciences,Roche).After computer filtering of UDPS data based on a Poisson statistical model,122 813 sequences were *** most conserved position detected by UDPS was analyzed by site-directed mutagenesis and evaluated in cell ***:Positions with highest variability rates were mainly located in the main core epitopes,confirming their role as immune-stimulating *** addition,the distribution of variability showed a relationship with HBV *** 1(genotype A) presented the lowest variability rates and patient 2(genotype A) had 3 codons with variability higher than 1%.Patient 3 and 4(both genotype D) presented 5 and 8 codons with variability higher than 1%,*** median baseline frequencies showed that genotype A samples had higher variability in epitopic positions than in the other positions analyzed,approaching significance(P = 0.07,sample 1 and P = 0.05,sample 2).In contrast,there were no significant differences in variability between the epitopic and other positions in genotype D ***,patient 1 presented a completely mutated motif from amino acid 64 to 67(E 64 LMT 67),which is commonly recognized by T helper ***,the variability observed in all 4 patients was particularly associated with the E 64 LMT 67 mo

关键词： Hepatitis B virus Ultra-deep-pyrosequencing Epitopes Quasispecies Linkage analysis

Development and test verification of air temperature model for Chinese solar and Spainish Almeria-type greenhouses

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International Journal of Agricultural and Biological Engineering 2017年第4期10卷 66-76页

作者： Jorge Antonio Sanchez-Molina Li Ming francisco rodriguez Jose Luis Guzman Wang Hui Yang Xinting The Automatic Control Robotics and Mechatronics Research GroupDepartment of InformaticsceiA3CIESOLUniversity of AlmeriaAlmeria 04120Spain Beijing Research Center for Information Technology in Agriculture/National Engineering Research Center for Information Technology in Agriculture/National Engineering Laboratory for Agri-product Quality Traceability/Key Laboratory for Information Technologies in Agriculture Ministry of AgricultureBeijing 100097China

Growth can be defined as an increment in biomass or an increment in weight or height of the organs of the plant influenced by physiological *** of these processes have their limits genetically determined,but climate and irrigation play an important *** of its importance,microclimate has been extensively studied in the modeling as a surrounding condition which is imposed by the exterior *** main objective of this work was to develop a temperature model based on the energy balance dynamics at two different greenhouse locations-South-eastern Spain and Northern China,and the traditional structures of Chinese solar greenhouse and Almería-type multi-span greenhouse were taken into *** final model was developed by combining the external conditions,the actuator influence and the crop growth,where the temperature is influenced by soil,crop,cover,actuators,back wall and greenhouse *** model took into account the energy lost by convective and conductive fluxes,as well as the energy supplied by solar radiation and heating *** soil and the back wall are the main media for energy *** temperature dynamic was determined by a physical model,which considered the energy balance from a holistic point of view-as a sub-model for a customizable interface among the external climate,the plant and the greenhouse *** influences of different subsystems included in the temperature model were analyzed and *** results showed a high R^(2)value of 0.94 for Beijing and 0.95 for Almeria,and the average error was low,of which the MAE and RMSE were 0.71 and 1.365 for Almeria and 0.62 and 1.102 for Beijing,***,the model can be considered as a powerful tool for control design purposes in microclimate systems.

关键词： air temperature model Chinese solar greenhouse Spanish Almería-type greenhouse energy balance dynamics microclimate

Creating and moving nanoantenna cold spots anywhere

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Light(Science & Applications) 2022年第10期11卷 2335-2344页

作者： Alex J.Vernon francisco J.rodriguez-Fortuno Department of Physics King's College LondonStrandLondon WC2R 2LSUnited Kingdom

Cold spots are sub-wavelength regions which might emerge near a nanoantenna,should one or more components of some far-field illumination cancel out with scattered *** show that by changing only the polarisation,amplitude,and phase of two plane waves,a unique,zero-magnitude and highly sub-wavelength cold spot can be created and moved anywhere in the space around a nanoantenna of any arbitrary *** can be achieved using ultra-fast modulated pulses,or a time-harmonic *** disturbed by a change in the nanoantenna's material or position,a manufactured cold spot is fragile and could be used in nanoscale *** technique exploits the linearity of Maxwell's equations and could be adapted to manipulate any phenomena governed by the linear wave equation,including acoustic *** is a means for potentially ultra-fast sub-wavelength electric field manipulation.

关键词： illumination scattered arbitrary

A Comparative Analysis of Vessels Detained under the PSC Agreements of Paris, Tokyo and Vina del Mar

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Journal of Shipping and Ocean Engineering 2014年第11期4卷 291-306页

作者： francisco Piniella Emilio rodriguez-Diaz Juan Ignacio Alcaide Department of Maritime Studies University of C6diz Puerto Real E-11510 Spain

Twenty years ago, in 1992, the International Maritime Organization set the objective of extending the regional Port State Control agreements to the world scale. This would be achieved, it was hoped, by ＂exporting＂ the model of the Paris MoU （Memorandum of Understanding） agreement of 1982 to other regional areas. Now would seem to be a good time to consider the prospects for a future scenario where all the countries involved form a truly global network with uniform procedures. The authors of this article put forward an earlier objective that could be the beginning of that global policy, fi＇om a detailed look at the three most important regional agreements （Paris, Tokyo and Vifia del Mar） that encompass geographically the following areas, respectively： Europe plus Canada, the Asia-Pacific, and South America. To this end, we first make a theoretical comparison based on the legal standards of application, and then present a study made of all the vessels detained under the three agreements, with a view to determining whether or not there are different kinds of behaviours, with regard to the flags and ＂recognised organizations＂ used by the vessels to certify their levels of safety. The numerical variables we have taken as basic with respect to compliance with the international standards are： the date that the vessel＇s keel was laid （age of the vessel） and as significant categorical variables, the type of vessel, the flag, the typology of that flag, the corresponding classification society, and whether or not that society is a member of the IACS （International Association of Classification Societies）. The results show a similar trend between the Paris and Tokyo agreements, but in the case of Vifia del Mar, the level of efficacy in the control appears to be insufficient in comparison with the standard of the other two.

关键词： Port state control flags of convenience maritime safety globalization.

New real-time-PCR method to identify single point mutations in hepatitis C virus

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World Journal of Gastroenterology 2016年第43期22卷 9604-9612页

作者： Qian Chen Irene Belmonte Maria Buti Leonardo Nieto Damir Garcia-Cehic Josep Gregori Celia Perales Laura Ordeig Meritxell Llorens Maria Eugenia Soria Rafael Esteban Juan Ignacio Esteban francisco rodriguez-Frias Josep Quer Liver Unit Internal Medicine Lab. Malalties Hepàtiques Vall d’Hebron Institut Recerca-Hospital Universitari Vall d’ Hebron08035 Barcelona Spain Centro de Investigación Biomédica en Red Enfermedades Hepáticas y Digestivas Instituto de Salud Carlos Ⅲ28029 madrid Spain Liver Pathology Unit Departments of Biochemistry and Microbiology Hospital Universitari Vall d’Hebron Autonomous University of Barcelona 08035 Bareelona Spain Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas del Instituto de Salud Carlos Ⅲ 28029 Madrid Spain Universitat Autònoma de Barcelona 08193 Bareelona Spain

AIM To develop a fast, low-cost diagnostic strategy to identify single point mutations in highly variable genomes such as hepatitis C virus(HCV).METHODS In patients with HCV infection, resistance-associated amino acid substitutions within the viral quasispecies prior to therapy can confer decreased susceptibility to direct-acting antiviral agents and lead to treatment failure and virological relapse. One such naturally occurring mutation is the Q80 K substitution in the HCV-NS3 protease gene, which confers resistance to PI inhibitors, particularly simeprevir. Low-cost, highly sensitive techniques enabling routine detection of these single point mutations would be useful to identify patients at a risk of treatment failure. Light Cycler methods, based on real-time PCR with sequencespecific probe hybridization, have been implemented in most diagnostic laboratories. However, this technique cannot identify single point mutations in highly variable genetic environments, such as the HCV genome. To circumvent this problem, we developed a new method to homogenize all nucleotides present in a region except the point mutation of interest. RESULTS Using nucleotide-specific probes Q, K, and R substitutions at position 80 were clearly identified at a sensitivity of 10%(mutations present at a frequency of at least 10% were detected). The technique was successfully applied to identify the Q80 K substitution in 240 HCV G1 serum samples, with performance comparable to that of direct Sanger sequencing, the current standard procedure for this purpose. The new method was then validated in a Catalonian population of 202 HCV G1-infected individuals. Q80 K was detected in 14.6% of G1 a patients and 0% of G1 b in our setting. CONCLUSION A fast, low-cost diagnostic strategy based on real-time PCR and fluorescence resonance energy transfer probe melting curve analysis has been successfully developed to identify single point mutations in highly variable genomes such as hepatitis C virus. This

关键词： Hepatitis C virus Resistance-associated amino acid substitutions Low-cost test Single-point mutations Q80K

Synthesis of ZnS:Tm<sup>3+</sup>Nanoparticles by the Polyol Method

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Open Journal of Applied Sciences 2019年第7期9卷 613-619页

作者： francisco Jesus rodriguez Joan Reyes Dulce Y. Medina Miguel Angel Barron Catalina Haro-Perez Ciencias Básicas e Ingeniería Universidad Autónoma Metropolitana Mexico City México

In this work, the synthesis of undoped and Tm-doped ZnS nanoparticles is successfully carried out by the polyol method. From XRD analyses, it was confirmed that both types of particles possess the cubic zinc blend structure of the ZnS, and that the structure is not altered by doping. The crystallite size computed by the Scherrer equation is about 9 ± 1 nm. From photoluminescence analyses, the results show that the excitation spectrum has two excitation peaks at 304 nm and 356 nm;by exciting at 304 nm, a strong blue emission is observed at 420 nm, while exciting at 356 nm the characteristic Tm transition 1G4 → 3H6 is observed at 417 nm. By doping with Tm ions, the emission color changes from pure blue to sky according to the change in CIE coordinates from x = 0.15, y = 0.015 to x = 0.18, y = 0.17, respectively.

关键词： Luminescence Zinc Sulfide Blue Emission

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最佳的自动化挤奶系统(AMS)

中国乳业 2016年第5期 41-43页

作者： francisco rodriguez 赵新茂利拉伐(北美)

自动化挤奶系统(AMS)中奶牛消耗时间的方式与传统挤奶系统中的奶牛并没有什么不同,其不同点在于,不同活动的时间分配以及奶牛个体间的差异。管理的好坏能够凸显这些差别,而管理的一致性也就尤为重要。为了帮助牧场主更好地理解自动化挤... 详细信息

自动化挤奶系统(AMS)中奶牛消耗时间的方式与传统挤奶系统中的奶牛并没有什么不同,其不同点在于,不同活动的时间分配以及奶牛个体间的差异。管理的好坏能够凸显这些差别,而管理的一致性也就尤为重要。为了帮助牧场主更好地理解自动化挤奶系统(AMS)的工作原理,从奶牛日常生活中不同活动的时间分配入手,重点介绍自动化挤奶系统(AMS)日常管理中需要着重关注的细节,旨在帮助牧场管理人员正确理解牛群的需求,为它们提供合适的生活环境,使奶牛更好地实现自身的遗传潜力。

关键词：机器人挤奶时间分配管理舒适度

如何为机器人挤奶牧场选择正确的奶牛流向系统

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中国乳业 2016年第2期 49-51页

作者： francisco rodriguez 赵新茂利拉伐(北美)

如同雪花和奶牛乳房结构一样,没有2个牧场是完全一样的。随着越来越多的牧场计划使用最新的机器人挤奶技术,也再次印证了这一事实。在机器人被交付到牧场前,需要进行许多的规划和决策:如何设计牧场布局、应该采用哪种奶牛流向以及哪种... 详细信息

如同雪花和奶牛乳房结构一样,没有2个牧场是完全一样的。随着越来越多的牧场计划使用最新的机器人挤奶技术,也再次印证了这一事实。在机器人被交付到牧场前,需要进行许多的规划和决策:如何设计牧场布局、应该采用哪种奶牛流向以及哪种饲喂策略、如何管理卧床和保证奶牛舒适度等。为解决以上问题,从5个方面介绍机器人挤奶牧场采用不同奶牛流向的区别,旨在帮助牧场主尽可能地调动奶牛的积极性和全面掌控牛群。

关键词：机器人挤奶牧场奶牛流向牛群管理饲喂策略

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传统挤奶到机器人挤奶的转变之旅(上)

中国乳业 2016年第3期 34-36页

作者： francisco rodriguez 赵新茂

从传统挤奶方式转向机器人挤奶是一个关键的过程。在这一过程中,要规划好牧场工作,并按需要,持续且有条理地按计划实施相关工作。至关重要的是,预防不良事件的发生,从而避免给员工和奶牛带来消极的影响。为了让牧场享受到机器人挤奶这... 详细信息

从传统挤奶方式转向机器人挤奶是一个关键的过程。在这一过程中,要规划好牧场工作,并按需要,持续且有条理地按计划实施相关工作。至关重要的是,预防不良事件的发生,从而避免给员工和奶牛带来消极的影响。为了让牧场享受到机器人挤奶这一先进技术的优势,以不同时间节点为切入口,重点介绍从传统挤奶系统向机器人挤奶系统转变的过程中,需要关注的管理细节,旨在为机器人牧场的管理工作指点迷津。

关键词：牧场机器人挤奶转变管理决策