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Kinetics and mechanisms of p-nitrophenol biodegradation by Pseudomonas aeruginosa HS-D38

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Journal of environmental sciences 2009年第9期21卷 1194-1199页

作者： ZHENG Yongliang LIU Deli LIU Shiwang XU Shangying YUAN Yongze XIONG Li Laboratory of Genetic Regulation and Integrative Biolog) College of Life sciences Central China Normal University Wuhan 430079 China. College of Life Science and Engineering Huanggang Normal University Huangzhou 438000 China Key Laboratory of Pesticide and Chemical biology of Ministry of Education Central China Normal University Wuhan 430079 China

The kinetics and mechanisms of p-nitrophenol （PNP） biodegradation by Pseudomonas aeruginosa HS-D38 were investigated. PNP could be used by HS-D38 strain as the sole carbon, nitrogen and energy sources, and PNP was mineralized at the maximum concentration of 500 mg/L within 24 h in an mineral salt medium （MSM）. The analytical results indicated that the biodegradation of PNP fit the first order kinetics model. The rate constant kpNp is 2.039 ×10^-2/h in MSM medium, KeNp＋N is 3.603 × 10^-2/h with the addition of ammonium chloride and KPNP＋c is 9.74 ×10^-3/h with additional glucose. The addition of ammonium chloride increased the degradation of PNP. On the contrary, the addition of glucose inhibited and delayed the biodegradation of PNP. Chemical analysis results by thin-layer chromatography （TLC）, UV-Vis spectroscopy and gas chromatography （GC） techniques suggested that PNP was converted to hydroquinone （HQ） and further degraded via 1,2,4-benzenetriol （1 ,2,4-BT） pathway.

关键词： ρ-nitrophenol biodegradation Pseudomonas aeruginosa

Arabidopsis ROOT HAIR DEFECTIVE3 is involved in nitrogen starvation-induced anthocyanin accumulation

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Journal of Integrative Plant biology 2015年第8期57卷 708-721页

作者： Jing Wang Yan Wang Ju Yang Chunli Ma Ying Zhang Ting Ge Zhi Qi Yan Kang College of Life sciences Inner Mongolia University

Anthocyanin accumulation is a common phenomenon seen in plants under environmental stress. In this study,we identified a new allele of ROOT HAIR DEFECTIVE3（RHD3）showing an anthocyanin overaccumulation phenotype under nitrogen starvation conditions. It is known that ethylene negatively regulates light- and sucrose-induced anthocyanin biosynthesis. We hypothesized that RHD3 achieves its negative effect on anthocyanin biosynthesis via an ethylene-regulating pathway. In support of this, similar to rhd3 mutants, the Arabidopsis ethylene signaling mutants etr1, ein2, and ein3/eil1 showed an anthocyanin overaccumulation phenotype under nitrogen starvation conditions. The ethylene precursor ACC strongly suppressed anthocyanin accumulation, dependent on ETR1, EIN2, EIN3/EIL1, and, partially, RHD3. In addition,inactivating RHD3 partially reversed the suppressive effect of ETO1 inactivation-evoked endogenous ethylene production on anthocyanin accumulation. The expression of nitrogen starvation-induced anthocyanin biosynthesis genes was negatively regulated by RHD3, but ethylene response genes were Researchpositively regulated by RHD3. Wild-type seedlings overexpressing RHD3 showed similar phenotypes to rhd3 mutants,indicating the existence of a fine-tuned relationship between gene expression and function. RHD3 was initially identified as a gene involved in root hair development. This study uncovered a new physiological function of RHD3 in nitrogen starvationinduced anthocyanin accumulation and ethylene homeostasis.

关键词： Anthocyanin ethylene signaling pathway ROOT HAIRDEFECTIVE3

SRWD1, a novel target gene of DELLA and WRKY proteins, participates in the development and immune response of rice (Oryza sativa L.)

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Science Bulletin 2017年第24期62卷 1639-1648页

作者： Chuanmiao Xie Ge Zhang Yuman Zhang Xiaoguang Song Hongyan Guo Xiaoying Chen Rongxiang Fang State Key Laboratory of Plant Genomics Institute of Microbiology Chinese Academy of Sciences Beijing 100101 China National Center for Plant Gene Research (Beijing) Beijing 100101 China university of Chinese Academy of sciences Beijing 100049 China State Key Laboratory of Plant Genomics and National Center for Plant Gene Research (Beijing) Institute of Genetics and Developmental Biology Chinese Academy of Sciences Beijing 100101. China

SRWD1, a member of the WD40 protein subfamily, is induced by salt stress in rice and its homolog in barley can bind to GAMYB, implying that SRWD1 might be involved in plant defense against environmental stress and gibberellic acid(GA) signalings. In this study, we focused on the biological functions and regulation mechanisms of SRWD1 in rice. The results showed that SRWD1 expression was repressed by GA and induced by abscisic acid(ABA). Two WRKY-family transcription factors, Os WRKY45 and Os WRKY72, were found to regulate SRWD1 expression by directly binding to the W-box region in its promoter. Transient co-expression and yeast two-hybrid analyses showed that a DELLA protein strengthened the activation of Os WRKY45 and partly relieved the suppression of Os WRKY72 by binding to ***, both SRWD1-overexpressing transgenic plants and SRWD1-knockout mutants showed dwarf phenotypes and resistance to Xanthomonas oryzae.

关键词： Phytohormone Gibberellin(GA) Abscisic acid(ABA) Signal transduction DELLA protein WRKY family protein

The Regulation of Gonadal Somatic Cell Differentiation in Humans

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Genomics, Proteomics & Bioinformatics 2022年第2期20卷 219-222页

作者： Min Chen Fei Gao Guangdong and Shenzhen Key Laboratory of Male Reproductive Medicine and Genetics Institute of UrologyPeking University Shenzhen HospitalShenzhen Peking University-The Hong Kong University of Science and Technology Medical CenterShenzhen 518036China State Key Laboratory of Stem Cell and Reproductive biology Institute of ZoologyChinese Academy of SciencesBeijing 100101China Institute for Stem Cell and Regeneration Chinese Academy of SciencesBeijing 100101China Beijing Institute for Stem Cell and Regenerative Medicine Beijing 100101China university of Chinese Academy of sciences Beijing 100049China

In mammals,both male and female gonads are derived from the bipotential gonadal primordium,i.e.,the genital *** germ cells(PGCs)are the germ cell progenitors that arise from the extraembryonic ectoderm,migrate through the hindgut endoderm,and reach the genital ridge before sex determination[1].Both Sertoli cells and granulosa cells are derived from somatic cells in undifferentiated genital *** differentiation of germ cells and gonadal somatic cells during gonad development is regulated by various factors,including transcription factors,epigenetic regulators,and environmental *** interactions between germ cells and somatic cells also play critical roles in gonad development and PGC differentiation.

关键词： progenitor migrate differentiated

A re-investigation of the bloom-forming unarmored dinoflagellate Karenia longicanalis(*** umbella)from Chinese coastal waters

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Journal of Oceanology and Limnology 2018年第6期36卷 2202-2215页

作者： WANG Jianyan CEN Jingyi LI Si LU Songhui CHAN Kin-Ka JIANG Tao LEI Xiangdong Department of Science Research Beijing Museum of Natural History College of Life Science and Technology Jinan University Key Laboratory of Eutrophication and Red Tide Prevention of Guangdong Higher Education Institutes Jinan University Marine Biological Section Department of BiologyUniversity of Copenhagen School of Science & Technology Open University of Hong Kong Key Laboratory of Sustainable Development of Marine Fisheries Ministry of AgricultureYellow Sea Fisheries Research InstituteChinese Academy of Fishery Sciences Wenzhou Marine environmental Monitoring Center Station State Oceanic Administration

The dinoflagellate genus K arenia is known for recurrent harmful blooms worldwide. However, species diversity of the genus is generally overlooked owing to the difficulty of identifying small unarmored dinoflagellates. We have established four clonal cultures of K arenia longicanalis isolated from the type locality, Hong Kong harbor(strain HK01) and other three locations along the Chinese coasts(strains YB01, DT01, and NJ01). The morphology of the strain was studied by light and scanning electron microscopy(LM and SEM) and the pigment composition analyzed by high-performance liquid chromatography. We provide the first molecular data of K. longicanalis based on the large subunit(LSU) rRNA gene sequence and internal transcribed spacer(ITS). The four strains showed identical LSU rDNA sequences with a similarity of 99.4% to the holotype of K arenia umbella(strain KUTN05) from Australia. In the ITS phylogeny, the sequence of K. umbella branched between the Chinese strains of K. longicanalis. A careful comparison of the morphology of K. longicanalis and K. umbella reveals the similarity in the diagnostic characters. Diff erences may appear due to the sample treatment for SEM. We conclude that K. umbella is a junior synonym of K. longicanalis.

关键词： harmful algal blooms(HABs) phytoplankton morphology phylogeny large subunit(LSU)rRNA internal transcribed spacer(ITS)

Sea surface temperature evolution in the Yellow Sea Warm Current pathway and its teleconnection with high and low latitude forcing during the mid-late Holocene

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Journal of Oceanology and Limnology 2022年第1期40卷 93-109页

作者： Zhong PI Fengming CHANG Tiegang LI Yikun CUI Key Laboratory of Marine Geology and Environment Institute of OceanologyChinese Academy of SciencesQingdao 266071China Key Laboratory of Marine Sedimentology and environmental Geology First Institute of OceanographyMinistry of Natural Resources(MNR)Qingdao 266061China Laboratory for Marine Geology and Environment Pilot National Laboratory for Marine Science and Technology(Qingdao)Qingdao 266237China Center for Ocean Mega-Science Chinese Academy of SciencesQingdao 266071China university of Chinese Academy of sciences Beijing 100049China School of Geography and Ocean Science Collaborative Innovation Center of South China Sea StudiesNanjing UniversityNanjing 210023China

Sea surface temperature(SST)in the Yellow Sea Warm Current(YSWC)pathway is sensitive to the East Asian Winter Monsoon(EAWM)and ***,the role of the YSWC in the evolution of regional SST remains ***,we present new U 37 k′based SST and grain size sequences spanning the last 6092 years in the sediment core Z1,which was retrieved from the central Yellow Sea muddy ***,U 37 k′-SST gradually increased since 6.1 ka BP,with a series of centennial-scale fl *** variation was mainly caused by EAWM when YSWC was weak between 6.1 and~3.9 ka BP,as shown by the end-member content of grain ***,after YSWC was fully developed,i.e.,since~3.9 ka BP,it exerted critical eff ects on SST evolution in its *** 1010-and 538-year cycles of the SST sequence indicated a basic control of solar activity on the oceanic conditions in the Yellow *** is suggested that the variation of total solar irradiance was amplifi ed by thermohaline circulation and then transmitted to the Yellow Sea through the ***,the tropical Pacifi c signal of El Niño was transmitted to the YSWC through the Kuroshio *** dual properties of warm water transported by YSWC to compensate the EAWM and driving by Kuroshio Current closely linked the variation of SST in the YSWC pathway to the Northern Hemisphere high latitude climate and the tropical Pacifi *** fi ndings highlight the signifi cance of YSWC on regional SST evolution and its teleconnection to high and low latitude forcing,which grains a better understanding of the long-term evolution of SST in the middle latitude Yellow Sea.

关键词： Yellow Sea Warm Current U 37 k′-SST East Asian Winter Monsoon Kuroshio Current high and low latitude forcing

Diverse plant mixtures sustain a greater arbuscular mycorrhizal fungi spore viability than monocultures after 12 years

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Journal of Plant Ecology 2020年第4期13卷 478-488页

作者： Peter Dietrich Christiane Roscher Adam Thomas Clark Nico Eisenhauer Bernhard Schmid Cameron Wagg Institute of Ecology and Evolution Friedrich-Schiller-University JenaDornburger Strasse 15907743 JenaGermany Department of Evolutionary biology and environmental studies University of ZurichWinterthurerstrasse 1908057 ZurichSwitzerland Department of Physiological Diversity UFZHelmholtz Centre for Environmental ResearchPermoserstrasse 1504318 LeipzigGermany German Centre of Integrative Biodiversity Research(iDiv)Halle-Jena-Leipzig Deutscher Platz 5e04103 LeipzigGermany Institute of biology Leipzig UniversityDeutscher Platz 5e04103 LeipzigGermany Department of Geography University of ZurichWinterthurerstrasse 1908057 ZurichSwitzerland Fredericton Research and Development Center Agriculture and Agri-Food Canada850 Lincoln RoadFrederictonNew Brunswick E3B 1P9Canada

Aims Intensive land management practices can compromise soil biodiversity,thus jeopardizing long-term soil *** mycorrhizal fungi(AMF)play a pivotal role in promoting soil productivity through obligate symbiotic associations with ***,it is not clear how properties of plant communities,especially species richness and composition influence the viability of AMF populations in *** Here we test whether monocultures of eight plant species from different plant functional groups,or a diverse mixture of plant species,maintain more viable AMF *** address this question,we extracted AMF spores from 12-year old plant monocultures and mixtures and paired single AMF spores with single plants in a factorial design crossing AMF spore origin with plant species *** Findings AMF spores from diverse plant mixtures were more successful at colonizing multiple plant species and plant individuals than AMF spores from plant ***,we found evidence that AMF spores originating from diverse mixtures more strongly increased biomass than AMF from monocultures in the legume Trifolium repens *** viability and ability to interact with many plant species were greater when AMF spores originated from 12-year old mixtures than *** results show for the first time that diverse plant communities can sustain AMF viability in soils and demonstrate the potential of diverse plant communities to maintain viable AMF propagules that are a key component to soil health and productivity.

关键词： aboveground–belowground interactions biodiversity biomass production mutualism plant–AMF interaction root colonization

Characterization of HpnG as a Purine Nucleoside Phosphorylase in Bacteriohopanepolyol Biosynthesis

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Chinese Journal of Chemistry 2024年第19期42卷 2351-2356页

作者： Xinhui Li Xiaoyu Zhu Yuting Zhong Wei Zhang Fener Chen Wenning Wang Wei Ding Qi Zhang Department of Chemistry Fudan UniversityShanghai 200433China State Key Laboratory of Microbial Metabolism School of Life Sciences&BiotechnologyShanghai Jiao Tong UniversityShanghai 200240China Key Laboratory of Extreme environmental Microbial Resources and Engineering of Gansu Province Northwest Institute of Eco-Environment and ResourcesChinese Academy of SciencesLanzhouGansu 73000China

Comprehensive Summary HpnG plays a crucial role in the production of ribosylhopane,a key intermediate in the biosynthesis of *** early extensive studies,the precise function of HpnG has remained ***,we report functional characterization of HpnG as a purine nucleoside phosphorylase,which converts adenosylhopane to phosphoribosylhopane in the presence of *** demonstrates broad substrate specificity and impressive stability,making it a valuable enzymatic tool for applications in nucleoside processing and related biotechnology.

关键词： Enzymes Enzyme catalysis Nucleosides Biosynthesis Natural products Lipids Phosphorolysis Biotransformations

ECMpy 2.0:A Python package for automated construction and analysis of enzyme-constrained models

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Synthetic and Systems Biotechnology 2024年第3期9卷 494-502页

作者： Zhitao Mao Jinhui Niu Jianxiao Zhao Yuanyuan Huang Ke Wu Liyuan Yun Jirun Guan Qianqian Yuan Xiaoping Liao Zhiwen Wang Hongwu Ma Biodesign Center Key Laboratory of Engineering Biology for Low-carbon ManufacturingTianjin Institute of Industrial BiotechnologyChinese Academy of SciencesTianjin300308China National Center of Technology Innovation for Synthetic biology Tianjin300308China Frontier Science Center for Synthetic biology and Key Laboratory of Systems Bioengineering(Ministry of Education) Tianjin UniversityTianjin300072China College of Biotechnology Tianjin University of Science and TechnologyTianjin300457China Institute of Biopharmaceutical and Health Engineering Tsinghua Shenzhen International Graduate SchoolTsinghua UniversityShenzhenChina Tianjin Agricultural College Tianjin300384China Haihe Laboratory of Synthetic biology Tianjin300308China

Genome-scale metabolic models(GEMs)have been widely employed to predict microorganism ***,GEMs only consider stoichiometric constraints,leading to a linear increase in simulated growth and product yields as substrate uptake rates *** divergence from experimental measurements prompted the creation of enzyme-constrained models(ecModels)for various species,successfully enhancing chemical *** upon studies that allocate macromolecule resources,we developed a Python-based workflow(ECMpy)that constructs an enzyme-constrained *** involves directly imposing an enzyme amount constraint in GEM and accounting for protein subunit composition in ***,this procedure de-mands manual collection of enzyme kinetic parameter information and subunit composition details,making it rather *** this work,we’ve enhanced the ECMpy toolbox to version 2.0,broadening its scope to automatically generate ecGEMs for a wider array of *** 2.0 automates the retrieval of enzyme kinetic parameters and employs machine learning for predicting these parameters,which significantly enhances parameter ***,ECMpy 2.0 introduces common analytical and visualization features for ecModels,rendering computational results more user ***,ECMpy 2.0 seamlessly integrates three published algorithms that exploit ecModels to uncover potential targets for metabolic *** 2.0 is available at https://***/tibbdc/ECMpy or as a pip package(https://***/project/ECMpy/).

关键词： Enzyme-constrained model Python package Automated construction Multiple analysis functions