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Crosstalk Complexities between Auxin, Cytokinin, and Ethylene in Arabidopsis Root Development： From Experiments to Systems Modeling, and Back Again

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Molecular Plant 2017年第12期10卷 1480-1496页

作者： Junli Liu Simon Moore chunli chen Keith Lindsey Department of Biosciences Durham University South Road Durham DH1 3LE UK College of Life Science and Technology Huazhong Agricultural University Wuhan 430070 China These authors contributed equally to this article.

Understanding how hormones and genes interact to coordinate plant growth in a changing environment is a major challenge in plant developmental biology. Auxin, cytokinin, and ethylene are three important hormones that regulate many aspects of plant development. This review critically evaluates the crosstalk between the three hormones in Arabidopsis root development. We integrate a variety of experimental data into a crosstalk network, which reveals multiple layers of complexity in auxin, cytokinin, and ethylene crosstalk. In particular, data integration reveals an additional, largely overlooked link between the ethylene and cytokinin pathways, which acts through a phosphorelay mechanism. This proposed link addresses outstanding questions on whether ethylene application promotes or inhibits receptor kinase activity of the ethylene receptors. Elucidating the complexity in auxin, cytokinin, and ethylene crosstalk requires a combined experimental and systems modeling approach. We evaluate important modeling efforts for establishing how crosstalk between auxin, cytokinin, and ethylene regulates patterning in root develop- ment. We discuss how a novel methodology that iteratively combines experiments with systems modeling analysis is essential for elucidating the complexity in crosstalk of auxin, cytokinin, and ethylene in root development. Finally, we discuss the future challenges from a combined experimental and modeling perspective.

关键词： Arabidopsis auxin cytokinin ethylene hormonal crosstalk spatiotemporal modeling

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DR5 is a Suitable System for Studying the Auxin Response in the Poncirus trifoliata-Xanthomonas axonopodis *** Interaction

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Horticultural Plant Journal 2020年第5期6卷 277-283页

作者： Xuan Xiao Xiaoyan Li chunli chen Wenwu Guo College of Life Science Gannan Normal UniversityGanzhouJiangxi 341000China Key Laboratory of Horticultural Plant Biology(Ministry of Education) College of Horticulture and Forestry SciencesHuazhong Agricultural UniversityWuhan 430070China

The local auxin distribution characteristics in the roots,stems,and leaves of stably transformed plantlets of trifoliate orange(Poncirus trifoliata)with auxin reporter system DR5::GUS-YFP were elucidated in this *** auxin response maxima could be observed in the apex of the root tip,primary phloem of the tender stem,and the margin of the young leaves according to the activity of theβ-glucuronidase(GUS)reporter gene triggered by the auxin responsive DR5 *** responses in the apex of the root tips increased when treated with synthetic auxin 1-naphthylacetic acid(NAA),but decreased when treated with the auxin polar transportation inhibitor 2,3,5-triiodobenzoic acid(TIBA).These results indicated that the DR5 reporter system worked in *** for auxin distribution and response *** orange is highly susceptible to citrus canker *** accumulation was observed visually in the invasion sites of the detached leaves inoculated with Xanthomonas axonopodis ***(Xac)by GUS staining;the upregulated expression of the YFP,GH3.1,GH3.9,and SAUR genes assessed by quantitative real-time PCR(qRT-PCR)also identified auxin accumulation in the inoculated tissues following Xac ***,these findings indicated that the plantlets of *** engineered with the auxin reporter gene provided a promising system for studying auxin responses during Xac infection.

关键词： Poncirus trifoliata DR5 auxin Xanthomonas axonopodis pv.citri

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The F-box protein SHORT PRIMARY ROOT modulates primary root meristem activity by targeting SEUSS-LIKE protein for degradation in rice

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Journal of Integrative Plant Biology 2023年第8期65卷 1937-1949页

作者： Nini Ma Nian Li Zhongmao Yu chunli chen Dao-Xiu Zhou Yu Zhao National Key Laboratory of Crop Genetic Improvement Hubei Hongshan LaboratoryHuazhong Agricultural UniversityWuhan 430070China Institute of Plant Science Paris-Saclay(IPS2) CNRSINRAEUniversity Paris-SaclayOrsay 91405France

Root meristem activity is essential for root morphogenesis and adaptation,but the molecular mechanism regulating root meristem activity is not fully ***,we identify an F-box family E3 ubiquitin ligase named SHORT PRIMARY ROOT(SHPR) that regulates primary root(PR)meristem activity and cell proliferation in *** loss-of-function mutations impair PR elongation in *** is involved in the formation of an SCF complex with the Oryza sativa SKP1-like protein OSK1/*** show that SHPR interacts with Oryza sativa SEUSS-LIKE(OsSLK) in the nucleus and is required for OsSLK polyubiquitination and degradation by the ubiquitin 26S-proteasome system(UPS).Transgenic plants overexpressing OsSLK display a shorter PR phenotype,which is similar to the SHPR loss-of-function *** analysis suggests that SHPR promotes PR elongation in an OsSLK-dependent ***,our study establishes SHPR as an E3 ubiquitin ligase that targets OsSLK for degradation,and uncovers a protein ubiquitination pathway as a mechanism for modulating root meristem activity in rice.

关键词： F-box protein primary root development rice SLK(SEUSS-LIKE) ubiquitination

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A predictive model for ethylene-mediated auxin and cytokinin patterning in the Arabidopsis root

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Plant Communications 2024年第7期5卷 120-137页

作者： Simon Moore George Jervis Jennifer F.Topping chunli chen Junli Liu Keith Lindsey Department of Biosciences Durham UniversitySouth RoadDurham DH13LEUK Hubei Hongshan Laboratory College of Life Science and TechnologyHuazhong Agricultural UniversityWuhan 430070China National Key Laboratory for Germplasm Innovation and Utilization for Fruit and Vegetable Horticultural Crops Huazhong Agricultural UniversityWuhanHubei 430070China

The interaction between auxin and cytokinin is important in many aspects of plant *** measurements of both auxin and cytokinin concentration and reporter gene expression clearly show the coexistence of auxin and cytokinin concentration patterning in Arabidopsis root ***,in the context of crosstalk among auxin,cytokinin,and ethylene,little is known about how auxin and cytokinin concentration patterns simultaneously emerge and how they regulate each other in the Arabidopsis *** work utilizes a wide range of experimental observations to propose a mechanism for simultaneous patterning of auxin and cytokinin *** addition to revealing the regulatory relationships between auxin and cytokinin,this mechanism shows that ethylene signaling is an important factor in achieving simultaneous auxin and cytokinin patterning,while also predicting other experimental *** the mechanism with a realistic in silico root model reproduces experimental observations of both auxin and cytokinin *** made by the mechanism can be compared with a variety of experimental observations,including those obtained by our group and other independent experiments reported by other *** of these predictions include patterning of auxin biosynthesis rate,changes in PIN1 and PIN2 patterns in pin3,4,7 mutants,changes in cytokinin patterning in the pls mutant,PLS patterning,and various trends in different *** research reveals a plausible mechanism for simultaneous patterning of auxin and cytokinin concentrations in Arabidopsis root development and suggests a key role for ethylene pattern integration.

关键词： Arabidopsis root auxin patterning cytokinin patterning ethylene signaling in silico digital root spatiotemporal modeling

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DNA Topoisomerase 1 Prevents R-loop Accumulation to Modulate Auxin-Regulated Root Development in Rice

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Molecular Plant 2017年第6期10卷 821-833页

作者： Sarfraz Shafiq chunli chen Jing Yang Lingling cheng Fei Ma Emilie Widemann Qianwen Sun Center for Plant Biology and Tsinghua-Peking Joint Center for Life Sciences School of Life Sciences Tsinghua University Beijing 100084 China College of Life Science and Technology Huazhong Agricultural University Wuhan 430070 China Permanent affiliation: Department of Environmental Sciences COMSATS Institute of Information Technology Abbottabad 22060 Pakistan

R-loop structures （RNA：DNA hybrids） have important functions in many biological processes, including transcriptional regulation and genome instability among diverse organisms. DNA topoisomerase 1 （TOP1）, an essential manipulator of DNA topology during RNA transcription and DNA replication processes, can prevent R-loop accumulation by removing the positive and negative DNA supercoiling that is made by RNA polymerases during transcription. TOP1 is required for plant development, but little is known about its function in preventing co-transcriptional R-loop accumulation in various biological processes in plants. Here we show that knockdown of OsTOP1 strongly affects rice development, causing defects in root archi- tecture and gravitropism, which are the consequences of misregulation of auxin signaling and transporter genes. We found that R-loops are naturally formed at rice auxin-related gene loci, and overaccumulate when OsTOP1 is knocked down or OsTOP1 protein activity is inhibited. OsTOP1 therefore sets the accurate expression levels of auxin-related genes by preventing the overaccumulation of inherent R-loops. Our data reveal R-loops as important factors in polar auxin transport and plant root development, and highlight that OsTOP1 functions as a key to link transcriptional R-loops with plant hormone signaling, provide new in- sights into transcriptional regulation of hormone signaling in plants.

关键词： R-loops DNA TOP1 auxin signaling root development

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Environmental pollution by persistent toxic substances and health risk in an industrial area of China

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Journal of Environmental Sciences 2011年第8期23卷 1359-1367页

作者： Jing Li Yonglong Lu Yajuan Shi Tieyu Wang Guang Wang Wei Luo Wentao Jiao chunli chen Feng Yan State Key Laboratory of Urban and Regional Ecology Research Center for Eco-Environmental SciencesChinese Academy of Sciences Beijing 100085 China. Graduate School of Chinese Academy of Sciences Beijing 100039 China

Soil is an important environmental medium that is closely associated with humans and their health. Despite this, very few studies have measured toxicants in soils, and associated them with health risks in humans. An assessment of health effects from exposure to contaminants in soils surrounding industrial areas of chemical production and storage is important. This article aims at determining pollution characteristics of persistent toxic substances （PTS） in an industrial area in China to unravel the relationship between soil pollution by PTS and human health. One hundred and five soil samples were collected and 742 questionnaires were handed out to residents living in and around an industrial area around Bohai Bay, Tianjin in Northern China. Concentrations of organochlorine pesticides and polycyclic aromatic hydrocarbons （PAHs） were determined in soil. Mann-Whitney U and binary multivariate non- conditional logistic regression models were employed to analyze the relationship between health indicators of local residents and contaminant levels. Odds ratio （OR） and a 95% confidence interval （CI） for health incidences were also calculated. The average concentrations of DDT （73.9 ng/g）, HCH （654 ng/g） and PAHs （1225 ng/g） were relatively high in the industrial area. Residents living in the chemical industry parks were exposed to a higher levels of PTS than those living outside the chemical industry parks. This exposure was associated with a higher risk of breast cancer （OR 1.87, 95% CI 0.12-30.06）, stomach cancer （OR 1.87, 95% CI 0.26- 13.41）, dermatitis （OR 1.72, 95% CI 1.05-2.80）, gastroenteritis （OR 1.59, 95% CI 0.94-2.68）, and pneumonia （OR 1.05, 95% CI 0.58-1.89）.

关键词： organochlorine pesticides polycyclic aromatic hydrocarbons soil pollution questionnaire survey health risk

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Silver nanoparticles:From in vitro green synthesis to in vivo biological effects in plants

Advanced Agrochem

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Advanced Agrochem 2023年第4期2卷 313-323页

作者： Na Zhang Juzhi Sun Liyan Yin Junli Liu chunli chen Hubei Hongshan Laboratory Wuhan430070China College of Life Science and Technology Huazhong Agricultural UniversityWuhan430070China Enshi Autonomous Prefecture Academy of Agricultural Sciences Shizhou Road No.517Enshi445000HubeiChina School of Life Sciences One Health InstituteHainan UniversityHaikou570228China Department of Biosciences Durham UniversityDurhamDH13LEUK

Silver nanoparticles(AgNPs)are extensively utilized in industrial,biotechnological and medical fields because of their specific physical and chemical properties,which shown small size effects,surface and interface effects,quantum scale ***,wastewater containing AgNPs is leached into the *** in soil may be absorbed by plant roots and they affect plant *** the complex interactions between AgNPs and plants is of crucial significance since plants are essential to the ecological environment as key players in *** previous reports have focused on AgNP phytotoxicity rather than positive effects in the plant *** article reviews recent studies on the important aspects about nanoparticles including the green synthesis,absorption,migration,accumulation,biotransformation,biological effects,and the underlying molecular mechanisms of AgNPs affecting *** provide insights into the interactions between AgNPs and plants,helping to further understand AgNP-related effects and biosafety in agricultural production,as well as the practical application of various nanomaterials in agriculture.

关键词： Silver nanoparticle Plants Biosynthesis Biphasic effect Molecular mechanism

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Does clopidogrel with aspirin after acute minor stroke or transient ischemic attack increase the risk of cerebral hemorrhage？

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Chinese Medical Journal 2014年第18期127卷 3352-3353页

作者： Zheng Haiping chen chunli Hu Zhiping Yang Li Department of Neurology the Second Xiangya Hospital of CentralSouth University Changsha Hunan 410011 China

Wang et al1 recently showed that in patients with transient ischemic attack （TIA） or minor stroke that can be treated within 24 hours after the onset of symptoms, the combination of clopidogrel and aspirin was superior to aspirin alone for reducing the risk of stroke in the first 90 days, without increasing the risk of hemorrhage. We report a patient treated with this combination but suffered recurrent stroke and hemorrhage.

关键词： stroke hemorrhage aspirin clopidogrel

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Reform of Practical Teaching of “Linux Operating System Fundamentals” Under the Background of Emerging Engineering Education

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Journal of Contemporary Educational Research 2024年第3期8卷 19-26页

作者： Zhenhua Wang chunli chen Yuzhu Wang School of Information Engineering China University of Geosciences(Beijing)Beijing 100083China

With the advancement of the construction of emerging engineering education,the reform of practical teaching has become an important task of higher engineering *** article takes the course“Linux Operating System Fundamentals”as an example to explore practical teaching reform in the context of emerging engineering *** analyzing the current situation and problems in course practical teaching,we proposed practical teaching reforms such as online experiments,practical content updates,project-based engineering practices,and diversified evaluation models,and designed corresponding implementation *** has proved that this reform can improve students’learning interest and engineering practical skills,and cultivate outstanding engineers with innovative spirit and practical skills.

关键词： Emerging engineering education Practical teaching reform Project practice Virtual experiments

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Single-cell transcriptome analysis dissects lncRNA-associated gene networks in Arabidopsis

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Plant Communications 2024年第2期5卷 94-105页

作者： Zhaohui He Yangming Lan Xinkai Zhou Bianjiong Yu Tao Zhu Fa Yang Liang-Yu Fu Haoyu Chao Jiahao Wang Rong-Xu Feng Shimin Zuo Wenzhi Lan chunli chen Ming chen Xue Zhao Keming Hu Dijun chen State Key Laboratory of Pharmaceutical Biotechnology School of Life SciencesNanjing UniversityNanjing 210023China Department of Bioinformatics College of Life SciencesZhejiang UniversityHangzhou 310058China Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/Key Laboratory of Plant Functional Genomics of the Ministry of Education College of AgricultureYangzhou UniversityYangzhou 225009China Co-Innovation Center for Modern Production Technology of Grain Crops of Jiangsu Province/Key Laboratory of Crop Genetics and Physiology of Jiangsu Province Yangzhou UniversityYangzhou 225009China Zhejiang Zhoushan High School Zhoushan 316099China National Key Laboratory for Germplasm Innovation and Utilization for Fruit and Vegetable Horticultural Crops Hubei Hongshan LaboratoryWuhan 430070China

The plant genome produces an extremely large collection of long noncoding RNAs(lncRNAs)that are generally expressed in a context-specific manner and have pivotal roles in regulation of diverse biological ***,we mapped the transcriptional heterogeneity of lncRNAs and their associated gene reg-ulatory networks at single-cell *** generated a comprehensive cell atlas at the whole-organism level by integrative analysis of 28 published single-cell RNA sequencing(scRNA-seq)datasets from juvenile Arabidopsis *** then provided an in-depth analysis of cell-type-related lncRNA signatures that show expression patterns consistent with canonical protein-coding gene *** further demon-strated that the cell-type-specific expression of lncRNAs largely explains their tissue *** addi-tion,we predicted gene regulatory networks on the basis of motif enrichment and co-expression analysis of lncRNAs and mRNAs,and we identified putative transcription factors orchestrating cell-type-specific expression of *** analysis results are available at the single-cell-based plant lncRNA atlas data-base(scPLAD;https://***/scPLAD/).Overall,this work demonstrates the power of inte-grative single-cell data analysis applied to plant lncRNA biology and provides fundamental insights into lncRNA expression specificity and associated gene regulation.

关键词： single-cell transcriptomics long noncoding RNAs lncRNAs gene regulatory networks GRNs plants

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