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High-quality assembled and annotated genomes of Nicotiana tabacum and Nicotiana benthamiana reveal chromosome evolution and changes in defense arsenals

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Molecular Plant 2024年第3期17卷 423-437页

作者： Jubin Wang qingling Zhang Jeffrey Tung Xi Zhang Dan Liu Yingtian Deng Zhendong Tian Huilan Chen Taotao Wang Weixiao Yin Bo Lij Zhibing Lai Savithramma P.Dinesh-Kumar Barbara Baker feng Li National Key Laboratory for Germplasm Innovation and Utilization for Fruit and Vegetable Horticultural Crops College of Horticulture and Forestry SciencesHuazhong Agricultural UniversityWuhanHubei 430070China Plant Gene Expression Center Department of Plant and Microbial BiologyUniversity of CaliforniaBerkeleyBerkeleyCA 94706USA College of Plant Science and Technology Huazhong Agricultural UniversityWuhanHubei 430070China College of Life Science and Technology Huazhong Agricultural UniversityWuhanHubei 430070China Department of Plant Biology and The Genome Center College of Biological SciencesUniversity of CalforniaDavisDavisCA 95616USA The Key Laboratory of Horticultural Plant Genetic and Improvement of Jiangxi Province Institute of Biological ResourcesJiangxi Academy of SciencesNanchang 330299China institute of Vegetables and Flowers Jiangxi Academy of Agricultural SciencesNanchang 330200Chin Hubei Hongshan Laboratory WuhanHubei 430070China

Nicotiana tabacum and Nicotiana benthamiana are widely used models in plant biology research.However,genomic studies of these species have lagged.Here we report the chromosome-level reference genome assemblies for N.benthamiana and N.tabacum with an estimated 99.5%and 99.8%completeness,respec-tively.Sensitive transcription start and termination site sequencing methods were developed and used for accurate gene annotation in N.tabacum.Comparative analyses revealed evidence for the parental origins and chromosome structural changes,leading to hybrid genome formation of each species.Interestingly,theantiviral silencinggenesRDR1,RDR6,DCL2,DCL3,andAGO2were lost from one or both subgenomes in N.benthamiana,while both homeologs were kept in N.tabacum.Furthermore,the N.benthamiana genome encodes fewer immune receptors and signaling components than that of N.tabacum.These find-ings uncover possible reasons underlying the hypersusceptible nature of N.benthamiana.We developed the user-friendly Nicomics(http:/***/Nicomics/)web server to facilitate better use of Nicotiana genomic resources as well as gene structure and expression analyses.

关键词： Nicotiana tabacum Nicotiana benthamiana genomics evolution disease resistance NLR

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An efficient confidentiality protection solution for pub/sub system

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Cybersecurity 2023年第4期6卷 14-25页

作者： Jinglei Pei Yuyang Shi qingling feng Ruisheng Shi Lina Lan Shui Yu Jinqiao Shi Zhaofeng Ma Beijing University of Posts and Telecommunications Beijing100876China Key Laboratory of Trustworthy Distributed Computing and Service(BUPT) Ministry of EducationBeijingChina School of Computer Science University of Technology SydneySydneyNSWAustralia

Publish/subscribe(pub/sub)systems are widely used in large-scale messaging systems due to their asynchronous and decoupled nature.With the population of pub/sub cloud services,the privacy protection problem of pub/sub systems has started to emerge,and events and subscriptions are exposed when executing event matching on untrustworthy cloud brokers.However,as the number of subscriptions increases,the effectiveness of the previous confidentiality protection approaches declines drastically.In this paper,we propose SBM(scalable blind matching),an effective confidentiality protection scheme for pub/sub systems.To the best of our knowledge,SBM is the first scheme that applies order-preserving encryption algorithm to protect the system’s confidentiality and ensure its scalability.In this scheme,SBM-I is highly effective in subscription matching but is unable to achieve ideal security IND-OCPA,whereas SBM-II is suggested to ensure system security and SGX is used to reduce interaction and boost ciphertext matching performance.The experiment demonstrates that this method has better matching performance compared to others:the average matching time of SBM-I is 3–4 orders of magnitude faster than the matching algorithm MP and SGX-based algorithm SCBR when the number of subscriptions is 500,000,and the average matching time of SBM-II is 40 times faster than MP and 24 times than SCBR.

关键词： Pub/sub Confidentiality Privacy protection SGX Scalability

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Comparing the regeneration potential between PLLA/Aragonite and PLLA/ Vaterite pearl composite scaffolds in rabbit radius segmental bone defects

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Bioactive Materials 2020年第4期5卷 980-989页

作者： Qianli Huang Yuansheng Liu Zhengxiao Ouyang qingling feng State Key Laboratory of Powder Metallurgy Central South UniversityChangsha410083PR China State Key Laboratory of New Ceramics and Fine Processing School of Materials Science and EngineeringTsinghua UniversityBeijing100084PR China Public Security College Northwest University of Political Science and LawXi'an710122PR China Department of Orthopedics The Second Xiangya HospitalCentral South UniversityChangsha410083PR China

Mussel-derived nacre and pearl,which are natural composites composed CaCO3 platelets and interplatelet organic matrix,have recently gained interest due to their osteogenic potential.The crystal form of CaCO3 could be either aragonite or vaterite depending on the characteristics of mineralization template within pearls.So far,little attention has been paid on the different osteogenic capacities between aragonite and vaterite pearl.In the current work,aragonite or vaterite pearl powders were incorporated into poly-L-lactic acid(PLLA)scaffold as bio-functional fillers for enhanced osteogenesis.In intro results revealed that PLLA/aragonite scaffold possessed stronger stimulatory effect on SaOS-2 cell proliferation and differentiation,evidenced by the enhanced cell viability,alkaline phosphatase activity,collagen synthesis and gene expressions of osteogenic markers including osteocalcin,osteopotin and bone sialoprotein.The bone regeneration potential of various scaffolds was evaluated in vivo employing a rabbit critical-sized radial bone defect model.The X-ray and micro-CT results showed that significant bone regeneration and bridging were achieved in defects implanted with composite scaffolds,while less bone formation and non-bridging were found for pure PLLA group.Histological evaluation using Masson's trichrome and hematoxylin/eosin(H&E)staining indicated a typical endochondral bone formation process conducted at defect sites treated with composite scaffolds.Through three-point bending test,the limbs implanted with PLLA/aragonite scaffold were found to bear significantly higher bending load compared to other two groups.Together,it is suggested that aragonite pearl has superior osteogenic capacity over vaterite pearl and PLLA/aragonite scaffold can be employed as a potential bone graft for bone regeneration.

关键词： Composite scaffold Aragonite Vaterite Segmental bone defect Bone regeneration

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Incorporation of silica nanoparticles to PLGA electrospun fibers for osteogenic differentiation of human osteoblast-like cells

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Regenerative Biomaterials 2018年第4期5卷 229-238页

作者： Xing Yang Yuanyuan Li Xujie Liu Qianli Huang Ranran Zhang qingling feng State Key Laboratory of New Ceramics and Fine Processing School of Materials Science and EngineeringTsinghua UniversityBeijing 100084China Department of Stomatology Shengli Oilfield Central HospitalDongying 257034China Graduate School at Shenzhen Tsinghua UniversityShenzhen 518055China State Key Laboratory of Powder Metallurgy Central South UniversityChangsha 410083China Key Laboratory of Advanced Materials of Ministry of Education of China School of Materials Science and EngineeringTsinghua UniversityBeijing 100084China

The development of bone tissue engineering scaffolds still remains a challenging field,although various biomaterials have been developed for this purpose.Electrospinning is a promising approach to fabricate nanofibers with an interconnected porous structure,which can support cell adhesion,guide cell proliferation and regulate cell differentiation.The aim of this study is to fabricate composite fibers composed of poly(lactic-co-glycolic acid)(PLGA)and silica nanoparticles(NPs)via electrospinning and investigate the effect of PLGA/SiO_(2)composite fibers on the cellular response of osteoblast-like cells(SaOS-2 cells).SEM and EDX analysis showed that silica NPs were homogenously dispersed in the composite fibers.The mechanical behavior of the fibers showed that silica NPs acted as reinforcements at concentrations of 2.5 and 5 mg/ml.The incorporation of silica NPs led to enhancement of cell attachment and spreading on PLGA/SiO_(2)composite fibers.SaOS-2 cells cultured on PLGA/SiO_(2)composite fibers exhibited increased alkaline phosphatase activity,collagen secretion and bone nodules formation.The bone nodules formation of SaOS-2 cells increased along with the amount of incorporated silica NPs.The present findings indicate that PLGA/SiO_(2)composite fibers can stimulate osteogenic differentiation of SaOS-2 cells and may be a promising candidate scaffold for bone tissue engineering.

关键词： composite fibers silica nanoparticles osteogenic differentiation bone tissue engineering

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Microstructure and inclusion of Ti-6AI-4V fabricated by selective laser melting

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Frontiers of Materials Science 2016年第4期10卷 428-431页

作者： Qianli HUANG Ningmin HU Xing YANG Ranran ZHANG qingling feng Department of Orthopedic Trauma Affiliated General Hospital Ningxia Medical University Yinchuan 750004 China State Key Laboratory of New Ceramics and Fine Processing School of Materials Science and Engineering Tsinghua University Beijing 100084 China

Selective laser melting （SLM） was used in fabricating the dense part from pre-alloyed Ti-6Al-4V powder. The microstructural evolution and inclusion formation of as-fabricated part were characterized in depth. The microstructure was characterized by features of columnar prior β grains and acicular martensite α＇. High density defects such as dislocations and twins can be produced in SLM process. Investigations on the inclusions find out that hard alpha inclusion, amorphous CaO and microcrystalline Al2O3 are three main inclusions formed in SLM. The inclusions formed at some specific sites on melt pool surface. The microstructural evolution and inclusion formation of as-fabricated material are closely related to the SLM process.

关键词： metals and alloys laser processing microstructure inclusion

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Specific heat treatment of selective laser melted Ti-6AI-4V for biomedical applications

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Frontiers of Materials Science 2015年第4期9卷 373-381页

作者： Qianli HUANG Xujie LIU Xing YANG Ranran ZHANG Zhijian SHEN qingling feng Key Laboratory of Advanced Materials of Ministry of Education of China School of Materials Science and Engineering Tsinghua University Beijing 100084 China

The ductility of as-fabricated Ti-6AI-4V fails far short of the requirements for biomedical titanium alloy implants and the heat treatment remains the only applicable option for improvement of their mechanical properties. In the present study, the decomposition of as-fabricated martensite was investigated to provide a general understanding on the kinetics of its phase transformation. The decomposition of as- fabricated martensite was found to be slower than that of water-quenched martensite. It indicates that specific heat treatment strategy is needed to be explored for as.fabricated Ti-6AI-4V. Three strategies of heat treatment were proposed based on different phase transformation mechanisms and classified as subtransus treatment, supersolvus treatment and mixed treatment. These specific heat treatments were conducted on selective laser melted samples to investigate the evolutions of microstructure and mechanical properties. The subtransus treatment leaded to a basket-weave structure without changing the morphology of columnar prior β grains. The supersolvus treatment resulted in a lamellar structure and equiaxed β grains. The mixed treatment yielded a microstructure that combines both features of the subtransus treatment and supersolvus treatment. The subtransus treatment is found to be the best choice among these three strategies for as.fabricated Ti-6AI-4V to be used as biomedical implants.

关键词： titanium alloy selective laser melting （SLM） heat treatment microstruc-ture mechanical property

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Calcium carbonate nanoparticles promote osteogenesis compared to adipogenesis in human bone-marrow mesenchymal stem cells

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Progress in Natural Science:Materials International 2018年第5期28卷 598-608页

作者： Xiaoning Li Xing Yang Xujie Liu Wei He Qianli Huang Shengrong Li qingling feng School of Earth Science and Resources China University of Geosciences State Key Laboratory of New Ceramics and Fine Processing School of Materials Science and Engineering Tsinghua University Graduate School at Shenzhen Tsinghua University School of Materials Science and Engineering University of Science and Technology Beijing Key Laboratory of Advanced Materials of Ministry of Education of China School of Materials Science and Engineering Tsinghua University

Rhombohedron-like and fusiform calcium carbonate nanoparticles were fabricated using a new method. Their geometry was controlled by varying the mixing speed and ratio of ethanol versus water in reaction system. The calcium carbonate nanoparticles(CCNPs) have slight effect on viability of human bone-marrow mesenchymal stem cells(hBMSCs) with dose-dependent and shape-dependent, but they can significantly promote osteogenic differentiation of hBMSCs in vitro by 10–37% increase of alkaline phosphatase(ALP) activity, 9–36% growth of collagen secretion and 1.13–1.83 folds upregulation of osteogenesis-related genes, even at lower dose ranges(5–20 μg/ml). The efficacity of promoting osteogenesis depends on the shape and dose of CCNPs. Furthermore,adipogenesis was inhibited by less accumulation of lipid droplets, lower triglyceride(TG) secretion and downregulation of adipogenesis-related genes. These findings improve the understanding of effects CCNPs on hBMSCs fate towards osteoblasts or adipocytes and have meaningful impact for combining use of CCNPs and hBMSCs in tissue engineering and regenerative medicine fields.

关键词： Human bone-marrow mesenchymal stem cells Calcium carbonate nanoparticles Osteogenesis Adipogenesis

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Nanoparticles and their effects on differentiation of mesenchymal stem cells

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Biomaterials Translational 2020年第1期1卷 58-68页

作者： Xing Yang Yuanyuan Li Xujie Liu Wei He Qianli Huang qingling feng China Institute of Marine Technology and Economy BeijingChina School of Materials Science and Engineering Tsinghua UniversityBeijingChina Department of Stomatology Shengli Oilfield Central HospitalDongyingShandong ProvinceChina School of Biomedical and Pharmaceutical Sciences Guangdong University of TechnologyGuangzhouGuangdong ProvinceChina School of Materials Science and Engineering University of Science and Technology BeijingBeijingChina State Key Laboratory of Powder Metallurgy Central South UniversityChangshaHunan ProvinceChina

Over the past decades,advancements in nanoscience and nanotechnology have resulted in numerous nanomedicine platforms.Various nanoparticles,which exhibit many unique properties,play increasingly important roles in the field of biomedicine to realize the potential of nanomedicine.Due to the capacity of self-renewal and multilineage mesenchymal differentiation,mesenchymal stem cells(MSCs)have been widely used in the area of regenerative medicine and in clinical applications due to their potential to differentiate into various lineages.There are several factors that impact the differentiation of MSCs into different lineages.Many types of biomaterials such as polymers,ceramics,and metals are commonly applied in tissue engineering and regenerative therapies,and they are continuously refined over time.In recent years,along with the rapid development of nanotechnology and nanomedicine,nanoparticles have been playing more and more important roles in the fields of biomedicine and bioengineering.The combined use of nanoparticles and MSCs in biomedicine requires greater knowledge of the effects of nanoparticles on MSCs.This review focuses on the effects of four inorganic or metallic nanoparticles(hydroxyapatite,silica,silver,and calcium carbonate),which are widely used as biomaterials,on the osteogenic and adipogenic differentiation of MSCs.In this review,the cytotoxicity of these four nanoparticles,their effects on osteogenic/adipogenic differentiation of MSCs and the signalling pathways or transcription factors involved are summarized.In addition,the chemical composition,size,shape,surface area,surface charge and surface chemistry of nanoparticles,have been reported to impact cellular behaviours.In this review,we particularly emphasize the influence of their size on cellular responses.We envision our review will provide a theoretical basis for the combined application of MSCs and nanoparticles in biomedicine.

关键词： adipogenic differentiation mesenchymal stem cells nanoparticles osteogenic differentiation tissue engineering

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基于霍恩-米特模型的医防融合执行影响因素分析

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中国全科医学 2024年第22期27卷 2700-2705页

作者：来庆玲徐川川冯园园梁沛枫李银山宁夏医科大学人文与管理学院宁夏回族自治区银川市750004 宁夏回族自治区固原市人民医院 756000 宁夏回族自治区人民医院宁夏回族自治区银川市750001

医防融合作为我国医药卫生体制改革的重要方向,对于满足人民群众全方位的健康需求具有重要意义,如何建立科学、有效的医防融合模式是当务之急。本研究运用文献分析等方式收集资料,综述我国医防融合政策的实施现状及困境,并基于霍恩-米... 详细信息

医防融合作为我国医药卫生体制改革的重要方向,对于满足人民群众全方位的健康需求具有重要意义,如何建立科学、有效的医防融合模式是当务之急。本研究运用文献分析等方式收集资料,综述我国医防融合政策的实施现状及困境,并基于霍恩-米特模型的6个维度,对医防融合政策执行影响因素进行分析。在此基础上提出应细化政策目标,明确政策执行标准,加大资源供给力度,丰富政策执行方式,探索医防机构利益共同点、完善“协同机制”,积极引导政策执行者开展医防融合服务等举措,旨在为今后医防融合服务得到高质量提升提供借鉴意义。

关键词：卫生服务管理医防融合霍恩-米特模型政策执行影响因素政策

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Effects of a polyamine inhibitor on the microstructure and macromechanical properties of hydrated shale

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Petroleum 2022年第4期8卷 538-545页

作者： Yunlei Hu Xiangchao Shi qingling Li Leiyu Gao feng Wu Gang Xie State Key Laboratory of Oil and Gas Reservoir Geology and Exploitation Southwest Petroleum UniversityChengdu610500China

China is rich in shale gas resources,however,wellbores in shale gas reservoirs are frequently unstable.This has a serious impact on the shale gas drilling cycle.Polyamine,a common additive in water-based shale drilling fluids,can effectively inhibit shale hydration.However,there is a lack of quantitative research on the effect of polyamine inhibitors on the microstructure and macromechanical properties of shale.Therefore,this study investigated those issues via a systematic hydration experiment carried out on shale from the Longmaxi Formation.The results show that microfractures are created and expand during shale hydration,that they also connect to form a complex microfracture network,and that 3%polyamine inhibitors(polyamine solution with volume fraction of 3%)can effectively inhibit their evolution.The ultrasonic velocities and UCS of the Longmaxi shale are significantly anisotropic;the former first increases and then decreases with the laminae angle,reaching its maximum when the laminae angle is 30°.The UCS of the shale is highest and lowest,respectively,when the laminae angles are 0°or 90°and 30°.In general,these UCS appear as a"U"pattern,high on two sides with a dip in the center.Polyamines can effectively inhibit both the expansion of shale and the reduction of P-wave and S-wave velocities,the UCS,and elastic modulus.The UCS of a shale sample was reduced by 28%e40%after immersion for 96 h in water,compared to 2%e20%after immersion in a 3%polyamine inhibitor for the same amount of time.The inhibiting effect of the polyamine was remarkable.

关键词： Polyamine Microfracture Macromechanical properties Hydration Anisotropy

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