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Landscape of global urban environmental resistome and its association with local socioeconomic and medical status

science china(Life sciences) 2024年第6期67卷 1292-1301页

作者： Jun Wu Yige Hu Michael H Perlin David Danko Jun Lu Manuela Oliveira Johannes Werner Maria M Zambrano Maria A Sierra Olayinka O Osuolale Paweł Łabaj Nicolás Rascovan Nur Hazlin Hazrin-Chong Soojin Jang Haruo Suzuki Marina Nieto-Caballero Bharath Prithiviraj Patrick K H Lee Agnieszka Chmielarczyk Anna Różańska Yongxiang Zhao Lan Wang Christopher e Mason Tieliu Shi Center for Bioinformatics and computational Biology and the Institute of Biomedical SciencesSchool of Life SciencesEast China Normal UniversityShanghai 200241China Department of Biology Program on Disease EvolutionUniversity of LouisvilleLouisville 40292USA Weill Cornell Medicine New York 10065USA The Bin Talal Bin Abdulaziz Alsaud institute for computational Biomedicine New York 10065USA Department of Pulmonary Medicine Shanghai Chest HospitalShanghai Jiao Tong UniversityShanghai 200025China i3S-Instituto de Investiga玢o e Inova玢o em Saúde Universidade do PortoPorto 4050-290Portugal Ipatimup-Instituto de Patologia e Imunologia Molecular da Universidade do Porto Porto 4200-465Portugal Departamento de Biologia Faculdade de CiênciasUniversidade do PortoPorto 4050-290Portugal High Performance and Cloud Computing Group Zentrum für Datenverarbeitung(ZDV)Eberhard Karls University of TübingenW鋍hterstra遝7672074TübingenGermany Corporación Corpogen Research Center Bogotá110311Colombia Applied environmental Metagenomics and Infectious Diseases Research(AeMIDR) Department of Biological SciencesElizade UniversityIlara-Mokin 340271Nigeria Maopolska Centre of Biotechnology Jagiellonian UniversityKraków 30-005Poland Aix-Marseille Université Mediterranean Institute of OceanologyUniversitéde ToulonCNRSIRDUM 110Marseille 83041France Department of Biological sciences and Biotechnology Faculty of Science and TechnologyUniversiti Kebangsaan Malaysia43600 UKM BangiSelangor Institut Pasteur Korea Seoul 13488Republic of Korea Faculty of environment and Information Studies Keio UniversityFujisawaKanagawa 252-0882Japan university of Colorado at Boulder CivilEnvironmental and Architectural DepartmentBoulder 80303USA Brooklyn College of the City university of New York Brooklyn 11210USA School of energy and environment City University of Hong KongHong Kong 999077China Department of Microbiology Faculty of MedicineJagiellonian UniversityKraków 30-005Poland Biological Targeting Diagnosis and The

Antimicrobial resistance(AMR)poses a critical threat to global health and development,with environmental factors—particularly in urban areas—contributing significantly to the spread of antibiotic resistance genes(ARGs).However,most research to date has been conducted at a local level,leaving significant gaps in our understanding of the global status of antibiotic resistance in urban *** address this issue,we thoroughly analyzed a total of 86,213 ARGs detected within 4.728 metagenome samples,which were collected by the Meta SUB International Consortium involving diverse urban environments in 60 cities of 27 countries,utilizing a deep-learning based *** findings demonstrated the strong geographical specificity of urban environmental resistome,and their correlation with various local socioeconomic and medical *** also identified distinctive evolutionary patterns of ARG-related biosynthetic gene clusters(BGCs)across different countries,and discovered that the urban environment represents a rich source of novel *** study provides a comprehensive overview of the global urban environmental resistome,and fills a significant gap in our knowledge of large-scale urban antibiotic resistome analysis.

关键词： urban environment metagenome antibiotic resistance resistance diversity biosynthetic gene clusters

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Improved nitrogen removal in dual-contaminated surface water by photocatalysis

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Frontiers of environmental science & engineering 2012年第3期6卷 428-436页

作者： Yongming ZHANG Rong YAN Zhen ZOU Jiewei WANG Bruce e.RITTMANN Deparlxnent of environmental engineering College of Life and Environmental ScienceShanghai Normal UniversityShanghai 200234China Swette Center for environmental Biotechnology Biodesign InstituteArizona State UniversityTempeAZ85287-5801USA

River waters in china have dual contamination by nutrients and recalcitrant organic compounds. In principle, the organic compotmds could be used to drive denitrification of nitrate, thus arresting eutrophication potential, if the recalcitrant organics could be made bioavailable. This study investigated the potential to make the recalcitrant organics bioavailable through photocatalysis. Batch denitrification tests in a biofilm reactor demonstrated that dual-contaminated river water was short of available electron donor, which resulted in low total nitrogen （TN） removal by denitrification. However, the denitrification rate was increased signifi- cantly by adding glucose or by making the organic matters of the river water more bioavailable through photocata- lysis. Photocatalysis for 15 min increased the Chemical Oxygen Demand （COD） of the river water from 53 to 84.mg. L-1 and led to a 4.fold increase in TN removal. The increase in TN removal gave the same effect as adding 92 mg.L 1 of glucose. During the photocatalysis experi- ments, the COD increased because photocatalysis trans- formed organic molecules from those that are resistant to dichromate oxidation in the COD test to those that can be oxidized by dichromate. This phenomenon was verified by testing photocatalysis of pyridine added to the river water. These findings point to the potential for N removal via denitrification after photocatalysis, and they also suggest that the rivers in china may be far more polluted than indicated by COD assays.

关键词： dual contamination eutrophication photocatalysis remediation surface water

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Competition for electrons between reductive dechlorination and denitrification

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Frontiers of environmental science & engineering 2017年第6期11卷 129-138页

作者： Lifeng Cao Weihua Sun Yuting Zhang Shimin Feng Jinyun Dong Yongming Zhang Bruce e. Rittmann Department of environmental science and engineering College of Life and Environmental Science Shanghai Normal University Shanghai 200234 China Biodesign Swette Center for environmental Biotechnology Arizona State University Tempe AZ 85287-5701 USA

It is common that 2,4.6-trichlorophenol （TCP） coexists with nitrate or nitrite in industrial wastewaters. In this work, simultaneous reductive dechlorination of TCP and denitrification of nitrate or nitrite competed for electron donor, which led to their mutual inhibition. All inhibitions could be relieved to a certain degree by augmenting an organic electron donor, but the impact of the added electron donor was strongest for TCP. For simultaneous reduction ofTCP together with nitrate, TCP＇s removal rate value increased 75% and 150%, respectively, when added glucose was increased from 0.4.mmol· L^-1 to 0.5 mmol· L^-1 and to 0.76 mmol· L^-1 For comparison, the removal rate for nitrate increased by only 25% and 114. for the same added glucose. The relationship between their initial biodegradation rates versus their initial concentrations could be represented well with the Monod model, which quantified their half-maximum-rate concentration （Ks value）, and Ks values for TCP, nitrate, and nitrite were larger with simultaneous reduction than independent reduction. The increases in Ks are further evidence that competition for the electron donor led to mutual inhibition. For bioremediation of wastewater containing TCP and oxidized nitrogen, both reduction reactions should proceed more rapidly if the oxidized nitrogen is nitrite instead of nitrate and if readily biodegradable electron acceptor is augmented.

关键词： Competition for electrons Denitrification Reductive dechlorination Bioremediation Nitrate 2 4 6-trichlorophenol

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enhance the performance of polymer solar cells via extension of the flanking end groups of fused ring acceptors

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science china Chemistry 2018年第10期61卷 1320-1327页

作者： Shiyu Feng Danyang Ma Liangliang Wu Yahui Liu Cai'e Zhang Xinjun Xu Xuebo Chen Shouke Yan Zhishan Bo Key Laboratory of energy Conversion and Storage Materials College of Chemistry Key Laboratory of Theoretical and Computational Photochemistry Ministry of Education Beijing Normal University State Key Laboratory of Chemical Resource engineering Beijing University of Chemical Technology

Two new fused ring electron acceptors(FReAs)IDT-IC-T and IDT-IC-B with thienyl or phenyl substituents at the terminal INCN unit are *** calculations indicate that the two acceptors dominantly favor an intermolecularπ-πstacking between the flanking terminal *** twist angle between the aryl substituent and INCN unit has a significant influence on theπ-πstacking distance of terminal ***-IC-T with a smaller twist angle has a shorterπ-πstacking distance than that of IDT-IC-B with a larger twist *** addition,extending the conjugation also affects the blend film ***-IC-T and IDT-IC-B based photoactive films show appropriate nanoscale phase separations;whereas,blend films based on the parent compound IDT-IC show large-size acceptor *** expected,PBDB-T:IDT-IC-T blend films show higher and more balanced electron and hole ***,these two acceptors present a good charge-transport connectivity arising from the extended conjugation and the increased intermolecular ***,IDT-IC-T demonstrates the highest electron mobility(1.4.×10^(-4.cm^2V^(-1)s^(-1))and the best power conversion efficiency(PCe)of 9.4.%.As for IDT-IC,which only shows an electron mobility of 7.33×10^(-5)cm^2V^(-1)s^(-1)and a PCe of 5.82%.These findings provide a facile and effective way to improve the photovoltaic performance.

关键词： non-fullerene extended end groups high charge mobility polymer solar cells

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QuaPra: efficient transcript assembly and quantification using quadratic programming with Apriori algorithm

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science china(Life sciences) 2019年第7期62卷 937-946页

作者： Xiangjun Ji Weida Tong Baitang Ning Christopher e. Mason David P. Kreil Pawel P. Labaj Geng Chen Tieliu Shi The Center for Bioinformatics and computational Biology Shanghai Key Laboratory of Regulatory BiologyInstitute of Biomedical Sciences and School of Life SciencesEast China Normal UniversityShanghai 200241China National Center for Toxicological Research U.S. Food and Drug Administration3900 NCTR RDJefferson AR 72079USA Department of Physiology and Biophysics Weill Cornell MedicineNew York 10065USA The HRH Prince Alwaleed Bin Talal Bin Abdulaziz Alsaud institute for computational Biomedicine New York 10021USA Feil Family Brain & Mind Research institute New York 10065USA Chair of Bioinformatics Research Group Boku UniversityVienna A-1190Austria Malopolska Centre of Biotechnology Jagiellonian UniversityKrakow 30-387Poland APART Fellow Austrian Academy of ScienceVienna A-1190Austria National Center for International Research of Biological Targeting Diagnosis and Therapy Guangxi Key Laboratory of Biological Targeting Diagnosis and Therapy ResearchCollaborative Innovation Center for Targeting Tumor Diagnosis and TherapyGuangxi Medical UniversityNanning 530021China

RNA sequencing(RNA-seq) has greatly facilitated the exploring of transcriptome landscape for diverse ***,transcriptome reconstruction is still challenging due to various limitations of current tools and sequencing ***,we introduce an efficient tool,QuaPra(Quadratic Programming combined with Apriori),for accurate transcriptome assembly and *** could detect at least 26.5% more low abundance(0.1–1 FPKM) transcripts with over 2.7% increase of sensitivity and precision on simulated data compared to other currently popular ***,around one-quarter more known transcripts were correctly assembled by QuaPra than other assemblers on real sequencing *** is freely available at http://***/QuaPra/.

关键词： RNA-Seq transcriptome reconstruction transcript assembly transcript quantification

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Developmental exposure to Bisphenol A Degrades Auditory Cortical Processing in Rats

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Neuroscience Bulletin 2022年第11期38卷 1292-1302页

作者： Binliang Tang Kailin Li Yuan Cheng Guimin Zhang Pengying An Yutian Sun Yue Fang Hui Liu Yang Shen Yifan Zhang Ye Shan e´tienne de Villers-Sidani Xiaoming Zhou Key Laboratory of Brain Functional Genomics of Ministry of education Shanghai Key Laboratory of Brain Functional GenomicsSchool of Life SciencesEast China Normal UniversityShanghai 200062China New York university-east china normal university {4. of Brain and Cognitive science NYU-ShanghaiShanghai 200062China Department of Neurology and Neurosurgery Montreal Neurological InstituteMcGill UniversityMontrealQC H3A 2B4Canada

Developmental exposure to bisphenol A(BPA),an endocrine-disrupting contaminant,impairs cognitive function in both animals and ***,whether BPA affects the development of primary sensory systems,which are the first to mature in the cortex,remains largely *** the rat as a model,we aimed to record the physiological and structural changes in the primary auditory cortex(A1)following lactational BPA exposure and their possible effects on behavioral *** found that BPA-exposed rats showed significant behavioral impairments when performing a sound temporal rate discrimination test.A significant alteration in spectral and temporal processing was also recorded in their A1,manifested as degraded frequency selectivity and diminished stimulus rate-following by *** post-exposure effects were accompanied by changes in the density and maturity of dendritic spines in *** findings demonstrated developmental impacts of BPA on auditory cortical processing and auditory-related discrimination,particularly in the temporal ***,the health implications for humans associated with early exposure to endocrine disruptors such as BPA merit more careful examination.

关键词： Auditory cortex Auditory behavior BPA exposure Cortical processing Plasticity

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Strong coupling with absorption and emission features of Ag@Au hollow nanoshells interacting with J-aggregated dye molecules

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Chinese Optics Letters 2021年第12期19卷 137-142页

作者： Tianchen Zhao Qiang Ma Yajie Bian Yuyi Zhang Yiting Liu Xiaolei Zhang Botao Wu e Wu Shitao Lou Qingyuan Jin State Key Laboratory of Precision Spectroscopy East China Normal UniversityShanghai 200241China Collaborative Innovation Center of extreme Optics Shanxi

We investigate the strong coupling from 5,5’,6,6’-tetrachloro-1,1’-diethyl-3,3’-di(4.sulfobutyl)-benzimidazolocarbocyanine(TDBC)molecules near pure nano-triangular Ag prisms or Ag@Au hollow *** TDBC molecules are deposited on pure Ag nanoprisms or Ag@Au hollow nanoshells with the plasmonic resonance peak,matching very closely with the absorption band of TDBC J-aggregates,obvious Rabi splitting can be observed due to the strong coupling ***,the photoluminescence intensity decreased with the increasing of the temperature,verifying the decreasing plasmon-exciton coupling interaction in the higher *** experimental results are coincident with the simulation results calculated by finite-difference time-domain method.

关键词： surface plasmon nanoshells plasmon-exciton coupling Rabi splitting

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