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In vitro effect of amoxicillin and clarithromycin on the 3' region of cagA gene in Helicobacter pylori isolates

World Journal of Gastroenterology 2013年第36期19卷 6044-6054页

作者： Javier Andrés Bustamante-Rengifo Andrés Januer Matta alvaro Pazos Luis Eduardo Bravo Registro Poblacional de Cáncer de Cali Department of Pathology School of Medicine Universidad del Valle Department of Biology Universidad de Nario

AIM:To evaluate the in vitro effect of amoxicillin and clarithromycin on the cag pathogenicity island(cag PAI).METHODS:One hundred and forty-nine clinical isolates of Helicobacter pylori(***)cultured from gastric biopsies from 206 Colombian patients with dyspeptic symptoms from a high-risk area for gastric cancer were included as study *** susceptibility was determined by the agar dilution *** isolates at baseline and in amoxicillin and clarithromycin serial dilutions were subjected to genotyping(cagA,vacA alleles s and m),Glu-Pro-Ile-Tyr-Ala(EPIYA)polymerase chain reaction and random amplified polymorphic DNA(RAPD).Images of the RAPD amplicons were analyzed by Gel-Pro Analyzer *** analyses was done using SPSS 15.0statistical package,where each of the fingerprint bands were denoted as *** were designed by following Ward’s clustering method and the estimation of distances between each pair of *** isolates was calculated with the squared Euclidean ***:Resistance rates were 4%for amoxicillin and 2.7%for clarithromycin with 2%double *** evidenced a high prevalence of the genotype cagA-positive/vacA *** 3’region of cagA gene was successfully amplified in 92.3%(12/13)of the baseline resistant isolates and in 60%(36/60)of the resistant isolates growing in antibiotic *** observing the distribution of the number of EPIYA repetitions in each dilution with respect to baseline isolates,it was found that in 61.5%(8/13)of the baseline isolates,a change in the number of EPIYA repetitions lowered antibiotic *** gain and loss of EPIYA motifs resulted in a diversity of *** subclones after bacterial adjustment to changing conditions product of antibiotic *** PCR evidenced the close clonal relationship between baseline isolates and isolates growing in antibiotic ***:Antibiotic pressure does not induce loss of the cag pathoge

关键词： Helicobacter pylori Antimicrobial susceptibility cag pathogenicity island cagA 3’region Random amplified polymorphic DNA-polymerase chain reaction

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Quantifying water stress effect on daily light use efficiency in Mediterranean ecosystems using satellite data

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International Journal of Digital Earth 2017年第6期10卷 623-638页

作者： Sergio Sanchez-Ruiz alvaro Moreno Maria Piles Fabio Maselli Arnaud Carrara Steven Running Maria Amparo Gilabert Departament de Fisica de la Terra i Termodinamica Facultat de FisicaUniversitat de ValenciaBurjassotSpain Numerical Terradynamic Simulation Group University of MontanaMissoulaMTUSA Barcelona Expert Center Institut de Ciencies del MarICM-CSICBarcelonaSpain IBIMET-CNR Sesto FiorentinoItaly Fundacion CEAM PaternaSpain

The capacity of six water stress factors(ε′(i))to track daily light use efficiency(ε)of water-limited ecosystems was *** factors are computed with remote sensing operational products and a limited amount of ground data:ε′1 uses ground precipitation and air temperature,and satellite incoming global solar radiation;ε′(2) uses ground air temperature,and satellite actual evapotranspiration and incoming global solar radiation;ε′_(3) uses satellite actual and potential evapotranspiration;ε′_(4) uses satellite soil moisture;ε′_(5) uses satellite-derived photochemical reflectance index;and ε′_(6) uses ground vapor pressure *** factors were implemented in a production efficiency model based on Monteith’s approach in order to assess their performance for modeling gross primary production(GPP).Estimated GPP was compared to reference GPP from eddy covariance(EC)measurements(GPP EC)in three sites placed in the Iberian Peninsula(two open shrublands and one savanna).ε′_(i) were correlated to ε,which was calculated by dividing GPP EC by ground measured photosynthetically active radiation(PAR)and satellite-derived fraction of absorbed *** results were achieved by ε′(1),ε′(2),ε′(3) and ε′(4) explaining around 40% and 50% of ε variance in open shurblands and savanna,*** terms of GPP,R^(2)≈0.70 were obtained in these cases.

关键词： Light use efficiency water stress GPP Monteith Mediterranean ecosystems

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A homozygous nonsense mutation in DNAJC30 causes Leber’s hereditary optic neuropathy with Leigh-like phenotypes

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Genes & Diseases 2023年第4期10卷 1165-1168页

作者： Chao Shen Kitty Wang Wei Li alvaro Serrano Kelly Powers Chengwan Zhang Jianjun Chen Miao Sun Department of Systems Biology Beckman Research Institute of City of HopeMonroviaCA 91016USA Division of Medical Genetics Department of PediatricsChildren’s Hospital Los Angeles/Keck School of Medicine of USCLos AngelesCA 90027USA Division of Neurology Children’s Hospital Los AngelesLos AngelesCA 90027USA Division of Genomic Medicine Department of Pathology and Laboratory MedicineChildren’s Hospital Los Angeles/Keck School of Medicine of USCLos AngelesCA 90027USA

Nuclear encoded genes can cause early-onset mitochon-dria-related disorders such as Leigh or Leigh-like *** in DNAJC30 have been implicated in mitochondria-related diseases such as Leber’s hereditary optic neuropa-thy(LHON)and Williams syndrome(WS).However,the role of DNAJC30 in disease progression concerning mitochon-drial dysfunction has yet to be fully *** we report a 12-year-old boy with acute dystonia onset at age 10.

关键词： Leigh Leber acute

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Cardiovascular impact of COVID-19 with a focus on children: A systematic review

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World Journal of Clinical Cases 2020年第21期8卷 5250-5283页

作者： Moises Rodriguez-Gonzalez Ana Castellano-Martinez Helena Maria Cascales-Poyatos alvaro Antonio Perez-Reviriego Pediatric Cardiology Division Puerta del Mar University HospitalCadiz 11009Spain Biomedical Research and Innovation Institute of Cadiz Puerta del Mar University HospitalCadiz 11009Spain Pediatric Nephrology Division Puerta del Mar University HospitalCadiz 11009Spain Pediatrics Division Motril-San Antonio Primary Care CenterMotril 18600Spain Pediatrics Division UGC Pediatria AG Sur GranadaSanta Ana HospitalMotril 18600Spain

BACKGROUND Since the beginning of the pandemic,coronavirus disease-2019(COVID-19)in children has shown milder cases and a better prognosis than *** the respiratory tract is the primary target for severe acute respiratory syndrome coronavirus 2(SARS-CoV-2),cardiovascular involvement is emerging as one of the most significant and life-threatening complications of SARS-CoV-2 infection in *** To summarize the current knowledge about the potential cardiovascular involvement in pediatric COVID-19 in order to give a perspective on how to take care of them during the current pandemic *** Multiple searches in MEDLINE,PubMed were performed using the search terms“COVID-19”or“SARS-CoV-2"were used in combination with“myocardial injury”or"arrhythmia"or“cardiovascular involvement”or"heart disease"or"congenital heart disease"or“pulmonary hypertension”or"long QT"or“cardiomyopathies”or“channelopathies”or"Multisystem inflammatory system"or"PMIS"or“MIS-C”or”Pediatric multisystem inflammatory syndrome"or"myocarditis"or"thromboembolism to identify articles published in English language from January 1st,2020 until July 31st,*** websites of World Health Organization,Centers for Disease control and Prevention,and the Johns Hopkins Coronavirus Resource Center were reviewed to provide up to date numbers and infection control *** lists from the articles were reviewed to identify additional pertinent *** manuscripts concerning the subject were reviewed by the authors,and the data were extracted using a standardized collection *** were subsequently analyzed with descriptive *** Pediatric multisystemic inflammatory syndrome temporally associated with COVID-19(PMIS),multiple meta-analyses were conducted to summarize the pooled mean proportion of different cardiovascular variables in this population in pseudo-cohorts of observed *** A total of 193 articles were *** publications used in

关键词： COVID-19 SARS-CoV-2 Congenital heart diseases Myocardial dysfunction Pediatric Multisystem Inflammatory Syndrome Cardiac Biomarkers

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Identification of ta-siRNAs and Cis-nat-siRNAs in Cassava and Their Roles in Response to Cassava Bacterial Blight

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Genomics, Proteomics & Bioinformatics 2013年第3期11卷 172-181页

作者： Andrés Quintero alvaro L. Pérez-Quintero Camilo López Departamento de Biología Universidad Nacional de Colombia

Trans-acting small interfering RNAs （ta-siRNAs） and natural cis-antisense siRNAs （cisnat-siRNAs） are recently discovered small RNAs （sRNAs） involved in post-transcriptional gene silencing, ta-siRNAs are transcribed from genomic loci and require processing by microRNAs （miRNAs）. cis-nat-siRNAs are derived from antisense RNAs produced by the simultaneous tran- scription of overlapping antisense genes. Their roles in many plant processes, including pathogen response, are mostly unknown. In this work, we employed a bioinformatic approach to identify ta-siRNAs and cis-nat-siRNAs in cassava from two sRNA libraries, one constructed from healthy cassava plants and one from plants inoculated with the bacterium Xanthomonas axonopodis pv. manihotis （Xam）. A total of 54 possible ta-siRNA loci were identified in cassava, including a homo- log of TAS3, the best studied plant ta-siRNA. Fifteen of these loci were induced, while 39 were repressed in response to Xam infection. In addition, 15 possible c/s-natural antisense transcript （cis-NAT） loci producing siRNAs were identified from overlapping antisense regions in the genome, and were found to be differentially expressed upon Xam infection. Roles of sRNAs were predicted by sequence complementarity and our results showed that many sRNAs identified in this work might be directed against various transcription factors. This work represents a significant step toward understanding the roles of sRNAs in the immune response of cassava.

关键词： ta-siRNA nat-siRNA Natural antisense transcriptCassava Xanthomonas

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Water use efficiency in an arid watershed: a case study

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Research in Cold and Arid Regions 2013年第1期5卷 16-26页

作者： Damaris Orphanopoulos Koen Verbist alvaro Chavez Guido Soto Rodhos Consulting Vaticano 4026 B Santiago Chile UNESCO-International Hydrological Programme 1 Rue Miolis Paris France Centro del Agua para Zonas áridas y Semiáridas de América Latina y el Caribe (CAZALAC) Benavente 980 La Serena Chile

Integrated Water Resource Management （IWRM） becomes increasingly important in arid watersheds, where water resources are scarce and demands are rising under increased population pressure. In this case study, we present the results from the Elqui Valley in Chile, where water resources are shared between agriculture, mining operations, hydropower generation and drinking water for nearby cities. An IWRM model was applied to visualize water resources distribution in the catchment and determine irrigation and water use efficiencies. After calibration with observed surface and groundwater measurements, the model showed large differ- ences in efficiencies between different irrigation sectors. Most notably, irrigation sectors with the highest irrigation security, i.e., higher water rights per hectare, were characterized with lower water use efficiencies. Frequent water deficits were present in sec- tors downstream of the main reservoir, which was related to limited water rights per hectare, lower irrigation efficiencies and higher water demands due to larger agricultural areas. In subsequent scenario analyses, the model was used to evaluate the impact of improved irrigation and water use efficiencies in these downstream sectors, to confirm an important reduction in water deficits, except for drought years when surface water resources are insufficient. In a third scenario, groundwater resources were allowed to compensate for water deficits, effectively reducing these in most irrigation sectors, especially during droughts. Expansion of the current agricultural area by 37% was evaluated, as a future scenario, and was found to be unsustainable, as aquifer levels are low- ered to such levels that make annual recharge insufficient.

关键词： integrated water resources management drought arid zones Chile

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DNA methylation profiling reveals new potential subtype-specific gene markers for early-stage renal cell carcinoma in Caucasian population

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Quantitative Biology 2022年第1期10卷 79-93页

作者： alvaro Filbert Liko Edward Ciputra Nathaniel Alvin Sanjaya Priskila Cherisca Then aka David Agustriawan Department of Biomedicine School of Life SciencesIndonesia International Institute for Life SciencesJakarta 13210Indonesia Department of Bioinformatics School of Life SciencesIndonesia International Institute for Life SciencesJakarta 13210Indonesia

Background:Renal cell carcinoma(RCC)is among the top adult cancers worldwide,with a challenging management due to lack of early diagnosis,therapy resistance,and diverse molecular *** DNA methylation has been associated with RCC development due to transcription *** discovered potential DNA methylation-based biomarkers for stage I RCC in Caucasian population from The Cancer Genome Atlas(TCGA)***:Patients’clinical,methylation beta-value,and mRNA expression data were *** methylation and expression analysis were conducted to obtain differentially methylated CpG-gene *** correlated CpG-gene pairs between their expression and methylation levels were selected using Pearson’s correlation test and then screened for any recorded somatic *** biomarker capacities were analyzed’using the Kaplan-Meier and receiver operating characteristic analysis,followed by protein network and functional enrichment ***:We obtained differentially methylated CpGs in clear cell(KIRC)and papillary RCC(KIRP)but not chromophobe RCC(KICH).Six inversely correlated CpG-gene pairs with no reported cancer-associated mutations were *** values were found in ATXN1 and RFTN1 for KIRC,along with GRAMD1B and TM4SF19 for KIRP,while diagnostic values were found in VIM and RFTN1 for KIRC,along with TNFAIP6 and TM4SF19 for *** subtypes showed enrichment of immune and metabolism-related ***:We discovered novel potential DNA methylation-based prognostic and diagnostic markers for early-stage RCC in Caucasian *** by wet laboratory analysis and adjustments for confounding variables might be needed,considering our study limitation to specific race.

关键词： biomarker chromophobe renal cell carcinoma clear cell renal cell carcinoma DNA methylation papillary renal cell carcinoma TCGA

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Inflammation-induced PINCH expression leads to actin depolymerization and mitochondrial mislocalization in neurons

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Translational Neurodegeneration 2020年第3期9卷 393-408页

作者： Kalimuthusamy Natarajaseenivasan Santhanam Shanmughapriya Prema Velusamy Matthew Sayre alvaro Garcia Nestor Mas Gomez Dianne Langford Department of Neurosciences and Center for Neurovirology Lewis Katz School of Medicine at Temple UniversityPhiladelphiaPA 19140USA Department of Microbiology Bharathidasan UniversityTiruchirappalli 620024India Heart and Vascular Institute Department of MedicineDepartment of Cellular and Molecular PhysiologyPenn State College of MedicineHersheyPA 17033USA

Background:Diseases and disorders with a chronic neuroinflammatory component are often linked with changes in brain *** neurodegenerative disorders,people living with human immunodeficiency virus(HIM)and Alzheimer's disease(AD)are particularly vulnerable to metabolic disturbances,but the mechanistic connections of inflammation,neurodegeneration and bioenergetic deficits in the central nervous system(CNS)are poorly *** particularly interesting new cysteine histidine-rich-protein(PINCH)is nearly undetectable in healthy mature neurons,but is robustly expressed in tauopathy-associated neurodegenerative diseases including HIV infection and *** robust PINCH expression has been reported in neurons in the brains of patients with HIV and AD,the molecular mechanisms and cellular consequences of increased PINCH expression in CNS disease remain largely ***:We investigated the regulatory mechanisms responsible for PINCH protein-mediated changes in bioenergetics,mitochondrial subcellular localization and bioenergetic deficits in neurons exposed to physialogical levels of TNFa or the HIV protein *** in the PINCH-ILK-Parvin(PIP)complex association with cofilin and TESK1 were assessed to identify factors responsible for actin depolymerization and mitochondrial *** and pharmacological inhibition experiments were conducted to confirm PINCH specificity and to reinstate proper protein-protein complex ***:We identified MEF2A as the PINCH transcription factor in neuroinflammation and determined the biological consequences of increased PINCH in ***-mediated activation of MEF2A via increased cellular calcium induced PINCH,leading to disruption of the PIP ternary complex,cofilin activation by TESK1 inactivation,and actin *** disruption of actin led to perinuclear mislocalization of mitochondria by destabilizing the kinesin-dependent mitochondrial transport machinery,resulting i

关键词： Neuron Mitochondria Actin PINCH Neuroinflammation

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Carboxylated-xyloglucan and peptide amphiphile co-assembly in wound healing

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Regenerative Biomaterials 2021年第5期8卷 75-86页

作者： Alessia Ajovalasit Carlos Redondo-Go´mez Maria Antonietta Sabatino Babatunde OOkesola Kristin Braun alvaro Mata Clelia Dispenza Dipartimento di Ingegneria(DI) Universitadegli Studi di PalermoViale delle ScienzeEdificio 6Palermo 90128Italy School of Engineering&Materials Science Queen Mary University of LondonLondon E14NSUK Institute of Bioengineering Queen Mary University of LondonLondon E14NSUK Blizard Institute Barts and The London School of Medicine and DentistryThe Blizard Building4 Newark StreetLondon E12ATUK School of Pharmacy University of NottinghamNottingham NG72RDUK Department of Chemical and Environmental Engineering University of NottinghamNottingham NG72RDUK Biodiscovery Institute University of NottinghamNottinghamNG72RDUK Istituto di Biofisica(IBF) Consiglio Nazionale Delle Ricerche(CNR)Via U.La Malfa 153Palermo 90146Italy

Hydrogel wound dressings can play critical roles in wound healing protecting the wound from trauma or contamination and providing an ideal environment to support the growth of endogenous cells and promote wound *** work presents a self-assembling hydrogel dressing that can assist the wound repair process mimicking the hierarchical structure of skin extracellular *** this aim,the co-assembly behaviour of a carboxylated variant of xyloglucan(CXG)with a peptide amphiphile(PA-H3)has been investigated to generate hierarchical constructs with tuneable molecular composition,structure,and *** electron microscopy and circular dichroism at a low concentration shows that CXG and PA-H3 co-assemble into nanofibres by hydrophobic and electrostatic interactions and further aggregate into nanofibre bundles and *** a higher concentration,CXG and PA-H3 yield hydrogels that have been characterized for their morphology by scanning electron microscopy and for the mechanical properties by smallamplitude oscillatory shear rheological measurements and compression tests at different CXG/PAH3 ratios.A preliminary biological evaluation has been carried out both in vitro with HaCat cells and in vivo in a mouse model.

关键词： self-assembly peptide nanofiber hydrogel wound healing skin tissue engineering

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Modelling the impacts of cover crop management strategies on the water use,carbon exchange and yield of olive orchards

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Journal of Forestry Research 2023年第1期34卷 283-295页

作者： alvaro López-Bernal Omar García-Tejera Luca Testi Francisco J.Villalobos Departamento de Agronomía Universidad de CórdobaCampus de RabanalesEdifi cio C414071 CórdobaSpain Departamento de Ingeniería Agraria Y del Medio Natural Universidad de La LagunaCarretera General de Geneto 238200 San Cristóbal de La LagunaSpain Instituto de Agricultura Sostenible(IAS) Consejo Superior de Investigaciones Científi cas(CSIC)Av.Menéndez Pidal S/N14080 CórdobaSpain

Cover crops have long been proposed as an alternative soil management for minimizing erosion rates in olive stands while providing additional ecosystem ***,the trade-off between these benefits and the competition for water with the trees makes the definition of optimal management practices a challenging task in semiarid *** work presents an improved version of OliveCan,a process-based simulation model of olive orchards that now can simulate the main impacts of cover crops on the water and carbon balances of olive *** simple in its formulation,the new model components were developed to deal with different cover crop management *** are presented for simulation runs of a traditional olive orchard in the conditions of southern Spain,evaluating the effects of different widths for the strip occupied by the cover crop(Fcc)and two contrasting mowing *** revealed that high Fccresulted in lower olive yields,but only when mowing was applied at the end of *** this regard,late mowing and high Fccwas associated with lower soil water content from spring to summer,coinciding with olive flowering and the earlier stages of fruit *** also negatively correlated with surface runoff irrespective of the mowing *** the other hand,net ecosystem productivity(NEP)was substantially affected by both Fccand mowing *** simulations under future climate scenarios comparing the same management alternatives are also presented,showing substantial yield reductions by the end of the century and minor or negligible changes in NEP and seasonal runoff.

关键词： Carbon exchange Cover crops Crop modelling Evapotranspiration Olea europaea L

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