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Breeding design in wheat by combining the QTL information in a GWAS panel with a general genetic map and computer simulation

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The Crop Journal 2023年第6期11卷 1816-1827页

作者： Xiaobo Wang Weiwei Mao Yongfa Wang Hongyao Lou Panfeng Guan yongming chen Huiru Peng Jiankang Wang State Key Laboratory of Crop Gene Resources and Breeding Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China Frontiers Science Center for Molecular Design Breeding(MOE) Key Laboratory of Crop Heterosis and UtilizationKey Laboratory of Crop Genetic ImprovementCollege of Agronomy and BiotechnologyChina Agricultural UniversityBeijing 100193China Hainan Yazhou Bay Seed Laboratory Sanya 572025HainanChina National Nanfan Research Institute(Sanya) Chinese Academy of Agricultural SciencesSanya 572024HainanChina

A large amount of genome-wide association study(GWAS)panels together with quantitative-trait locus(QTL)information associated with breeding-targeted traits have been described in wheat(Triticum aestivum L.).However,the application of mapping results from a GWAS panel to conventional wheat breeding remains a *** this study,we first report a general genetic map which was constructed from 44 published linkage *** permits the estimation of genetic distances between any two genetic loci with physical map positions,thereby unifying the linkage relationships between QTL,genes,and genomic markers from multiple genetic ***,we describe QTL mapping in a wheat GWAS panel of 688 accessions,identifying 77 QTL associated with 12 yield and grain-quality *** these QTL have known physical map positions,they could be mapped onto the general ***,we present a design approach to wheat breeding by using known QTL information and computer *** crosses between parents in the GWAS panel may be evaluated by the relative frequency of the target genotype,trait correlations in simulated progeny populations,and genetic gain of selected *** is possible to simultaneously improve yield and grain quality by suitable parental selection,progeny population size,and progeny selection *** the design approach will allow identifying the most promising crosses and selection schemes in advance of the field experiment,increasing predictability and efficiency in wheat breeding.

关键词： Wheat breeding Breeding design GWAS panel General genetic map Computer simulation

The protein corona modulates the inflammation inhibition by cationic nanoparticles via cell-free DNA scavenging

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Bioactive Materials 2022年第7期7卷 249-259页

作者： Xingliang Liu Huiyi Liang Yanzi Yan Jingjiao Wu Massimo Bottini Lixin Liu yongming chen School of Materials Science and Engineering Key Laboratory for Polymeric Composite and Functional Materials of Ministry of EducationSun Yat-sen UniversityGuangzhou510275China Department of Experimental Medicine University of Rome Tor VergataRome00133Italy

A central paradigm in nanomedicine is that when synthetic nanoparticles(NPs)enter the body,they are immediately cloaked by a corona of macromolecules(mostly proteins)that mediates the role of the physico-chemical properties in the NP biological functions(the“coronation paradigm”).In this work,we focused on the assessment of the“coronation paradigm”for cationic NPs(cNPs)used as rheumatoid arthritis(RA)drugs due to their ability to scavenge cell-free DNA(cfDNA).We fabricated series of cNPs uniformly coated with single or di-hydroxyl groups and different types of amino groups and showed that hydroxylated nanoparticles displayed a prolonged retention in inflamed joints and greater anti-inflammatory effect in collagen-induced arthritis(CIA)rats than the non-hydroxylated ***,the cNPs with secondary amines and a di-hydroxyl shell showed the best performance among the tested *** analysis showed that the cNPs with a di-hydroxyl shell adsorbed less opsonin proteins than the cNPs carrying mono hydroxyl groups and non-hydroxylated ones,which may provide a mechanistic explanation for the different biodistribution profiles of ***,this study suggests that the protein corona mediates the effects of the surface chemistry on the fate and functions of cNPs as anti-RA drugs.

关键词： Cationic nanoparticles Cell-free DNA Inflammation inhibition Protein corona Rheumatoid arthritis

3D-printed dermis-specific extracellular matrix mitigates scar contraction via inducing early angiogenesis and macrophage M2 polarization

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Bioactive Materials 2022年第4期7卷 236-246页

作者： Lei chen Zhiyong Li Yongtai Zheng Fei Zhou Jingling Zhao Qiyi Zhai Zhaoqiang Zhang Tianrun Liu yongming chen Shaohai Qi Department of Burns Laboratory of General SurgeryThe First Affiliated HospitalSunYat-Sen UniversityGuangzhou510080China School of Materials Science and Engineering Centre of Functional BiomaterialsKey Laboratory of Polymeric Composite Materials and Functional Materials of Ministry of EducationGD Research Centre for Functional Biomaterials Engineering and TechnologySun Yat-sen UniversityGuangzhou510275China Department of Oral and Maxillofacial Surgery Stomatological HospitalSouthern Medical UniversityNo.366South of Jiangnan BoulevardGuangzhou510280China Department of Otorhinolaryngology Head and Neck Surgery The Sixth Affiliated Hospital of Sun Yat-sen UniversityGuangzhouGuangdongChina

Scar contraction frequently happens in patients with deep burn ***,porcine dermal extracellular matrix(dECM)has supplied microenvironments that assist in wound healing but fail to inhibit scar *** overcome this drawback,we integrate dECM into three-dimensional(3D)-printed dermal analogues(PDA)to prevent scar *** have developed thermally gelled,non-rheologically modified dECM powder(dECMp)inks and successfully transformed them into PDA that was endowed with a micron-scale spatial *** optimal crosslinked PDA exhibited desired structure,good mechanical properties as well as excellent ***,in vivo experiments demonstrated that PDA could significantly reduced scar contraction and improved cosmetic upshots of split thickness skin grafts(STSG)than the commercially available dermal templates and STSG *** PDA has also induced an early,intense neovascularization,and evoked a type-2-like immune ***’s superior beneficial effects may attribute to their desired porous structure,the well-balanced physicochemical properties,and the preserved dermis-specific ECM cues,which collectively modulated the expression of genes such as Wnt11,ATF3,and IL1β,and influenced the crucial endogenous signalling *** findings of this study suggest that PDA is a clinical translatable material that possess high potential in reducing scar contraction.

关键词： Extracellular matrix Dermal analogues Scar contraction Macrophage Angiogenesis

A Collinearity-Incorporating Homology Inference Strategy for Connecting Emerging Assemblies in the Triticeae Tribe as a Pilot Practice in the Plant Pangenomic Era

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Molecular Plant 2020年第12期13卷 1694-1708页

作者： yongming chen Wanjun Song Xiaoming Xie Zihao Wang Panfeng Guan Huiru Peng Yuannian Jiao Zhongfu Ni Qixin Sun Weilong Guo Key Laboratory of Crop Heterosis and Utilization State Key Laboratory for AgrobiotechnologyBeijing Key Laboratory of Crop Genetic ImprovementChina Agricultural UniversityBeijing 100193China Beijing Geek Gene Technology Co Ltd Beijing 100193China State Key Laboratory of Systematic and Evolutionary Botany Institute of BotanyChinese Academy of SciencesBeijing 100093China University of Chinese Academy of Sciences Beijing 100049China

Plant genome sequencing has dramatically increased,and some species even have multiple high-quality reference *** for clade-specific homology inference and analysis have increased in the pangenomic *** we present a novel method,GeneTribe(https://***/genetribe/),for homology inference among genetically similar genomes that incorporates gene collinearity and shows bet-ter performance than traditional sequence-similarity-based methods in terms of accuracy and *** Triticeae tribe is a typical allopolyploid-rich clade with complex species relationships that includes many important crops,such as wheat,barley,and *** built Triticeae-GeneTribe(http://***/TGT/),a homology database,by integrating 12 Triticeae genomes and 3 outgroup model genomes and implemented versatile analysis and visualization *** macrocollinearity analysis,we were able to construct a refined model illustrating the structural rearrangements of the 4A-5A-7B chromosomes in wheat as two major translocation *** collinearity analysis at both the macro-and microscale,we illustrated the complex evolutionary history of homologs of the wheat vernalization gene Vm2,which evolved as a combined result of genome translocation,duplication,and polyploidization and gene loss *** work provides a useful practice for connecting emerging genome assemblies,with awareness of the extensive polyploidy in plants,and will help researchers efficiently exploit genome sequence re-sources.

关键词： homology inference collinearity database pangenome Triticeae tribe polyploid

Non-invasive delivery of levodopa-loaded nanoparticles to the brain via lymphatic vasculature to enhance treatment of Parkinson’s disease

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Nano Research 2021年第8期14卷 2749-2761页

作者： Tianqi Nie Zhiyu He Jinchang Zhu Kuntao chen Gregory P.Howard Jesus Pacheco-Torres II Minn Pengfei Zhao Zaver M.Bhujwalla Hai-Quan Mao Lixin Liu yongming chen School of Materials Science and Engineering Key Laboratory for Polymeric Composite and Functional Materials of Ministry of EducationSun Yat-sen UniversityGuangzhou 510275China Key Laboratory of Marine Chemistry Theory and Technology Ministry of EducationOcean University of ChinaQingdao 266100China Department of Materials Science and Engineering Johns Hopkins University BaltimoreMD 21218USA Department of Biomedical Engineering Johns Hopkins School of Medicine BaltimoreMD 21205USA Institute for NanoBioTechnology Johns Hopkins UniversityBaltimoreMD 21218USA Division of Nuclear Medicine and Molecular Imaging Department of Radiology and Radiological Science Johns Hopkins School of MedicineBaltimoreMD 21205USA Translational Tissue Engineering Center Johns Hopkins School of MedicineBaltimoreMD 21287USA

Levodopa(L-DOPA),a precursor of dopamine,is commonly prescribed for the treatment of the Parkinson’s disease(PD).However,oral administration of levodopa results in a high level of homocysteine in the peripheral circulation,thereby elevating the risk of cardiovascular disease,and limiting its clinical ***,we report a non-invasive method to deliver levodopa to the brain by delivering L-DOPA-loaded sub-50 nm nanoparticles via brain-lymphatic *** hydrophilic L-DOPA was successfully encapsulated into nanoparticles of tannic acid(TA)/polyvinyl alcohol(PVA)via hydrogen bonding using the flash nanocomplexation(FNC)process,resulting in a high L-DOPA-loading capacity and uniform size in a scalable *** analysis in a PD rat model demonstrated that the levels of dopamine and tyrosine hydroxylase,which indicate the dopaminergic neuron functions,were increased by 2-and 4-fold,*** disorders and cerebral oxidative stress of the rats were significantly *** formulation exhibited a high degree of biocompatibility as evidenced by lack of induced inflammation or other pathological changes in major *** antioxidative and drug-delivery platform administered through the brain-lymphatic vasculature shows promise for clinical treatment of the PD.

关键词： levodopa brain delivery cerebral lymphatic vasculature Parkinson’s disease

Influence of Beta-Cyclodextrin Functionalized Tin Phenylphosphonate on the Thermal Stability and Flame Retardancy of Epoxy Composites

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Journal of Renewable Materials 2022年第12期10卷 3119-3130页

作者： yongming chen Shuai Huang Han Zhao Ru Yang Yining He Tianyu Zhao Yunlong Zhang Qinghong Kong Shasha Sun Junhao Zhang School of the Environment and Safety Engineering Jiangsu UniversityZhenjiang212013China Zhenjiang Electric Power Supply Company State Grid Jiangsu Electric Power Co.Ltd.Zhenjiang212000China School of Environmental and Chemical Engineering Jiangsu University of Science and TechnologyZhenjiang212003China

To enhance the thermal stability and flame retardancy of epoxy resin(EP),beta-cyclodextrin(β-CD)is successfully introduced into the layered tin phenylphosphonate(SnPP),which is incorporated into EP matrix for preparing EP/β-CD@SnPP *** results indicate that the addition ofβ-CD@SnPP obviously improve the thermal stability and residual yield of EP composites at higher *** the amount ofβ-CD@SnPP is only 4 wt%,EP/4β-CD@SnPP composites pass V-1 rating,and LOI value is up to 30.8%.Meanwhile,β-CD@SnPP effectively suppress the heat release and reduce the smoke production of EP/β-CD@SnPP composites in combustion,and the peak heat release rate(PHRR),total heat release(THR),smoke production rate(SPR)of EP/6β-CD@SnPP composites reduce by 28.4%,33.0%and 44.8%by comparison with those of pure *** good flame retardancy and smoke suppression are ascribed to the synergistic effect of excellent carbon-forming capability and fire retardancy ofβ-CD@SnPP.

关键词： Epoxy resin tin phenylphosphonate beta-cyclodextrin synergistic effect flame retardancy smoke suppression

Genomic insights into the origin and evolution of spelt(Triticum spelta L.)as a valuable gene pool for modern wheat breeding

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Plant Communications 2024年第5期5卷 75-90页

作者： Yongfa Wang Zihao Wang yongming chen Tianyu Lan Xiaobo Wang Gang Liu Mingming Xin Zhaorong Hu Yingyin Yao Zhongfu Ni Qixin Sun Weilong Guo Huiru Peng Frontiers Science Center for Molecular Design Breeding Key Laboratory of Crop Heterosis and UtilizationBeijing Key Laboratory of Crop Genetic ImprovementChina Agricultural UniversityBeijing 100193China Institute for Plant Genetics Heinrich Heine University40225 DusseldorfGermany Sanya Institute of China Agricultural University Sanya 572025China

Spelt(Triticum aestivum ***)is an important wheat subspecies mainly cultivated in Europe before the 20th century that has contributed to modern wheat breeding as a valuable genetic ***,relatively little is known about the origins and maintenance of spelt ***,using resequencing data from 416 worldwide wheat accessions,including representative spelt wheat,we demonstrate that Eu-ropean spelt emerged when primitive hexaploid wheat spread to the west and hybridized with pre-settled domesticated emmer,the putative maternal *** introgression regions from domesticated emmer confer spelt’s primitive morphological characters used for species taxonomy,such as tenacious glumes and laterﬂ*** propose a haplotype-based"spelt index"to identify spelt-type wheat vari-eties and to quantify utilization of the spelt gene pool in modern wheat *** study reveals the ge-netic basis for the establishment of the spelt wheat subspecies in a specific ecological niche and the vital role of the spelt gene pool as a unique germplasm resource in modern wheat breeding.

关键词： wheat spelt interspecific hybridization gene pool modern wheat breeding

建筑水平外遮阳板角度对其与外窗间传热效果影响的分析与研究

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太阳能学报 2018年第10期39卷 2856-2862页

作者：李杜陈永明盐城工学院电气工程学院

根据传热学原理，利用数学模型对建筑水平外遮阳板与外窗之间的热传导、辐射传热和对流传热进行模拟分析得出随遮阳角度变化的传热效果曲线图，同时采用Fluent软件进行实验验证，归纳出传热效果随遮阳角度的变化规律。

关键词：传热对流辐射节能

WheatOmics:A platform combining multiple omics data to accelerate functional genomics studies in wheat

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Molecular Plant 2021年第12期14卷 1965-1968页

作者： Shengwei Ma Meng Wang Jianhui Wu Weilong Guo yongming chen Guangwei Li Yanpeng Wang Weiming Shi Guangmin Xia Daolin FU Zhensheng Kang Fei Ni State Key Laboratory of Crop Genetics and Germplasm Enhancement Nanjing Agricultural UniversityNanjing 210095China State Key Laboratory of Soil and Sustainable Agriculture Institute of Soil ScienceChinese Academy of SciencesNanjing 210008China State Key Laboratory of Crop Biology College of AgronomyShandong Agricultural UniversityTaian 271018China State Key Laboratory of Crop Stress Biology for Arid Areas College of AgronomyNorthwest A&F UniversityYangling 712100China State Key Laboratory for Agrobiotechnology Key Laboratory of Crop Heterosis and UtilizationBeijing Key Laboratory of Crop Genetic ImprovementChina Agricultural UniversityBeijing 100193China College of Agronomy Longzi Lake CampusHenan Agricultural UniversityZhengzhou 450046China State Key Laboratory of Plant Cell and Chromosome Engineering Institute of Genetics and Developmental Biologythe Innovative Academy of Seed DesignChinese Academy of SciencesBeijing 100101China The Key Laboratory of Plant Development and Environment Adaptation Biology Ministry of EducationSchool of Life ScienceShandong UniversityQingdao 266237China

Dear Editor,Mold-breaking progress in whole-genome sequencing and rapid accumulation of multi-omics data have revolutionized the research strategies of functional genomics in wheat(Wang et al.,2018).However,how to access these vast multi-omics data and to extract key information on genes of in-terest,is still challenging for most wet-lab or field wheat re-searchers who have little bioinformatic experiences and cannot access the expensive computational ***,we pre-sent WheatOmics(http://***/,previously designated as Triticeae Multi-omics Center,http://202.***.139.32/),a free,web-accessible,and user-friendly *** not only empowers the effective access to the visualized multi-omics data of user-interested genes but also offers several distinctive and practical toolkits that can ease almost every aspect of wheat functional genomics studies(Figure 1A).

关键词： Wheat functional Figure