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Disease resistance conferred by components of essential chrysanthemum oil and the Epigenetic regulation of OsTPS1

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Science China(Life Sciences) 2023年第5期66卷 1108-1118页

作者： Chuansong Zhan Long Lei Hao Guo Shen Zhou Congping Xu Zixin Liu Zichen Wu Yuan Deng Yuanyuan Miao Yu Han Meng Zhang Hua Li Sishu Huang Chenkun Yang Feng Zhang Yufei Li Ling Liu Xianqing Liu Hafiz Muhammad Khalid Abbas Alisdair R.Fernie Meng Yuan Jie Luo College of Tropical Crops Hainan UniversityHaikou 570228China Sanya Nanfan Research Institute of Hainan University Hainan Yazhou Bay Seed LaboratorySanya 572025China National Key Laboratory of Crop Genetic Improvement and National Center of Plant Gene Research(Wuhan) Huazhong Agricultural UniversityWuhan 430070China Max Planck Institute of Molecular Plant Physiology Am Mühlenberg 114476 Potsdam-GolmGermany

The sesquiterpene alpha-bisabolol is the predominant active ingredient in essential oils that are highly valued in the cosmetics industry due to its wound healing,anti-inflammatory,and skin-soothing properties.Alpha-bisabolol was thought to be restricted to Compositae plants.Here we reveal that alpha-bisabolol is also synthesized in rice,a non-Compositae plant,where it acts as a novel sesquiterpene phytoalexin.Overexpressing the gene responsible for the biosynthesis of alpha-bisabolol,Os TPS1,conferred bacterial blight resistance in rice.Phylogenomic analyses revealed that alpha-bisabolol-synthesizing enzymes in rice and Compositae evolved independently.Further experiments demonstrated that the natural variation in the disease resistance level was associated with differential transcription of Os TPS1 due to polymorphisms in its promoter.We demonstrated that Os TPS1 was regulated at the epigenetic level by JMJ705 through the methyl jasmonate pathway.These data reveal the cross-family accumulation and regulatory mechanisms of alpha-bisabolol production.

关键词： alpha-bisabolol Epigenetic regulation natural variation

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Epigenetic regulation of B cells and its role in autoimmune pathogenesis

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Cellular & Molecular Immunology 2022年第11期19卷 1215-1234页

作者： Fan Xiao Ke Rui Xiaofei Shi Haijing Wu Xiaoyan Cai Kathy O.Lui Qianjin Lu Esteban Ballestar Jie Tian Hejian Zou Liwei Lu Department of Pathology Shenzhen Institute of Research and Innovation and Shenzhen HospitalThe University of Hong KongHong KongChongqing International Institute for ImmunologyChongqingChina Institute of Medical Immunology Affiliated Hospital of Jiangsu UniversityZhenjiangChina Department of Rheumatology and Immunology The First Affiliated Hospital and School of MedicineHenan University of Science and TechnologyLuoyangChina Department of Dermatology Second Xiangya HospitalCentral South UniversityHunan Key Laboratory of Medical EpigenomicsChangshaHunanChina Department of Rheumatology Guangzhou First People’s HospitalSchool of MedicineSouth China University of TechnologyGuangzhouChina Department of Chemical Pathology Faculty of MedicinePrince of Wales HospitalThe Chinese University of Hong KongHong KongChina epigenetics and Immune Disease Group Josep Carreras Research InstituteBadalona08916 BarcelonaSpain epigenetics in Inflammatory and Metabolic Diseases Laboratory Health Science CenterEast China Normal UniversityShanghaiChina Department of Rheumatology Huashan HospitalFudan UniversityShanghaiChina Centre for Oncology and Immunology Hong Kong Science ParkHong KongChina

B cells play a pivotal role in the pathogenesis of autoimmune diseases.Although previous studies have shown many genetic polymorphisms associated with B-cell activation in patients with various autoimmune disorders,progress in epigenetic research has revealed new mechanisms leading to B-cell hyperactivation.epigenetic mechanisms,including those involving histone modifications,DNA methylation,and noncoding RNAs,regulate B-cell responses,and their dysregulation can contribute to the pathogenesis of autoimmune diseases.Patients with autoimmune diseases show epigenetic alterations that lead to the initiation and perpetuation of autoimmune inflammation.Moreover,many clinical and animal model studies have shown the promising potential of epigenetic therapies for patients.In this review,we present an up-to-date overview of epigenetic mechanisms with a focus on their roles in regulating functional B-cell subsets.Furthermore,we discuss epigenetic dysregulation in B cells and highlight its contribution to the development of autoimmune diseases.Based on clinical and preclinical evidence,we discuss novel epigenetic biomarkers and therapies for patients with autoimmune disorders.

关键词： B cells Epigenetic regulation Autoimmune disease Biomarker Therapy

epigenetic changes in the regulation of carotenoid metabolism during honeysuckle flower development

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Horticultural Plant Journal 2023年第3期9卷 577-588页

作者： Hang Yu Na Cui Kun Guo Wen Xu Haifeng Wang State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources Guangxi Key Lab of Sugarcane BiologyCollege of AgricultureGuangxi UniversityNanningGuangxi 530005China Institute of Medicinal Plant Development Chinese Academy of Medical SciencesPeking Union Medical CollegeBeijing 100193China Innovation and Transformation Center of Science and Technology College of PharmacyFujian University of Traditional Chinese MedicineFuzhouFujian 350122China

Flower development is one of the most vital pathways in plant development, during which the Epigenetic regulation of gene expression is essential. DNA methylation, the most conserved epigenetic modification, participates in gene expression regulation and transposable element silencing. Honeysuckle(Lonicera japonica) is an important medicinal plant renowned for its colorful and fragrant flowers. Honeysuckle flowers change color from white to gold as a result of carotenoid accumulation during development. However, the role of DNA methylation in flower color changes is not well understood in L. japonica. Here, we performed whole-genome bisulfite sequencing and transcriptome sequencing during flowering development in honeysuckle. The results showed that a decrease in the levels of genome-wide average DNA methylation during flower development and changes in DNA methylation were associated with the expression of demethylase genes. Moreover, many genes involved in carotenoid biosynthesis and degradation, such as Lj PSY1, LjPDS1, LjLCYE, and LjCCD4, have altered expression levels because of hypomethylation, indicating that DNA methylation plays an important role in flower color changes in honeysuckle. Taken together, our data provide epigenetic insights into flower development and color change in honeysuckles.

关键词： Lonicera japonica DNA methylation Epigenetic regulation Gene expression Carotenoid metabolism

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Genome-wide distribution and functions of the AAE complex in Epigenetic regulation in Arabidopsis

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Journal of Integrative Plant Biology 2021年第4期63卷 707-722页

作者： Yi-Zhe Zhang Juncheng Lin Zhizhong Ren Chun-Xiang Chen Daisuke Miki Si-Si Xie Jian Zhang Ya-Nan Chang Jing Jiang Jun Yan Qingshun Q.Li Jian-Kang Zhu Cheng-Guo Duan Shanghai Center for Plant Stress Biology and CAS Center of Excellence for Molecular Plant Sciences Chinese Academy of SciencesShanghai 201602China University of Chinese Academy of Sciences Beijing 100049China Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems College of the Environment and EcologyXiamen UniversityXiamen 361102China State Key Laboratory of Crop Stress Adaptation and Improvement School of Life SciencesHenan UniversityKaifeng 475004China School of Life Sciences East China Normal UniversityShanghai 200241China Graduate College of Biomedical Sciences Western University of Health SciencesPomona 91766USA Department of Horticulture and Landscape Architecture Purdue UniversityWest Lafayette 47907USA

Heterochromatin is widespread in eukaryotic genomes and has diverse impacts depending on its genomic context.Previous studies have shown that a protein complex,the ASI1-AIPP1-EDM2(AAE)complex,participates in polyadenylation regulation of several intronic heterochromatin-containing genes.However,the genome-wide functions of AAE are still unknown.Here,we show that the ASI1 and EDM2 mostly target the common genomic regions on a genome-wide level and preferentially interacts with genetic heterochromatin.Polyadenylation(poly(A)sequencing reveals that AAE complex has a substantial influence on poly(A)site usage of heterochromatin-containing genes,includingnotonlyintronicheterochromatincontaining genes but also the genes showing overlap with heterochromatin.Intriguingly,AAE is also involved in the alternative splicing regulation of a number of heterochromatin-overlapping genes,such as the disease resistance gene RPP4.We provided evidence that genic heterochromatin is indispensable for the recruitment of AAE in polyadenylation and splicing regulation.In addition to conferring RNA processing regulation at genic heterochromatin-containing genes,AAE also targets some transposable elements(TEs)outside of genes(including TEs sandwiched by genes and island TEs)for epigenetic silencing.Our results reveal new functions of AAE in RNA processing and epigenetic silencing,and thus representimportantadvancesinEpigenetic regulation.

关键词： alternative polyadenylation alternative splicing Epigenetic regulation heterochromatin transcription

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The effects of diabetes on male fertility and Epigenetic regulation during spermatogenesis

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Asian Journal of Andrology 2015年第6期17卷 948-953,I0008-I0009页

作者： Guo-Lian Ding Ye Liu Miao-E Liu Jie-Xue Pan Meng-Xi Guo Jian-Zhong Sheng He-Feng Huang International Peace Maternity and Child Health Hospital Shanghai Jiao Tong University School of Medicine Shanghai 200030 China The Key Laboratory of Reproductive Genetics Ministry of Education (Zhejiang University) Hangzhou 310058 China Department of Pathology and Pathophysiology School of MedicineZhejiang University Hangzhou 310058 China

The effects of diabetes mellitus include long-term damages, dysfunctions, and failures of various organs. An important complication of diabetes is the disturbance in the male reproductive system. Glucose metabolism is an important event in spermatogenesis. Moreover, glucose metabolism is also important for maintaining basic cell activity, as well as specific functions, such as motility and fertilization ability in mature sperm. Diabetic disease and experimentally induced diabetes both demonstrated that either type 1 diabetes or type 2 diabetes could have detrimental effects on male fertility, especially on sperm quality, such as sperm motility, sperm DNA integrity, and ingredients of seminal plasma. epigenetic modifications are essential during spermatogenesis. The Epigenetic regulation represents chromatin modifications including DNA methylation, histone modifications, remodeling of nucleosomes and the higher-order chromatin reorganization and noncoding RNAs. If spermatogenesis is affected during the critical developmental window, embryonic gonadal development, and germline differentiation, environmentally-induced epigenetic modifications may become permanent in the germ line epigenome and have a potential impact on subsequent generations through epigenetic transgenerational inheritance. Diabetes may influence the epigenetic modification during sperm spermatogenesis and that these epigenetic dysregulation may be inherited through the male germ line and passed onto more than one generation, which in turn may increase the risk of diabetes in offspring.

关键词： diabetes Epigenetic regulation sperm spermatogenesis

Metabolic-epigenetic nexus in regulation of stem cell fate

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World Journal of Stem Cells 2022年第7期14卷 490-502页

作者： Yi Liu Di-Xin Cui Yue Pan Si-Han Yu Li-Wei Zheng Mian Wan State Key Laboratory of Oral Diseases National Clinical Research Center for Oral DiseasesDepartment of Pediatric DentistryWest China Hospital of StomatologySichuan UniversityChengdu 610041Sichuan ProvinceChina State Key Laboratory of Oral Diseases National Clinical Research Center for Oral DiseasesDepartment of Cariology and EndodonticsWest China Hospital of StomatologySichuan UniversityChengdu 610041Sichuan ProvinceChina

Stem cell fate determination is one of the central questions in stem cell biology,and although its regulation has been studied at genomic and proteomic levels,a variety of biological activities in cells occur at the metabolic level.Metabolomics studies have established the metabolome during stem cell differentiation and have revealed the role of metabolites in stem cell fate determination.While metabolism is considered to play a biological regulatory role as an energy source,recent studies have suggested the nexus between metabolism and epigenetics because several metabolites function as cofactors and substrates in epigenetic mechanisms,including histone modification,DNA methylation,and microRNAs.Additionally,the epigenetic modification is sensitive to the dynamic metabolites and consequently leads to changes in transcription.The nexus between metabolism and epigenetics proposes a novel stem cell-based therapeutic strategy through manipulating metabolites.In the present review,we summarize the possible nexus between metabolic and Epigenetic regulation in stem cell fate determination,and discuss the potential preventive and therapeutic strategies via targeting metabolites.

关键词： Metabolism Epigenetic regulation Stem cell fate Nexus effect

Epigenetic regulation of dental pulp stem cells and its potential in regenerative endodontics

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World Journal of Stem Cells 2021年第11期13卷 1647-1666页

作者： Ying Liu Lu Gan Di-Xin Cui Si-Han Yu Yue Pan Li-Wei Zheng Mian Wan State Key Laboratory of Oral Diseases National Clinical Research Center for Oral DiseasesDepartment of Pediatric DentistryWest China Hospital of StomatologySichuan UniversityChengdu 610041Sichuan ProvinceChina State Key Laboratory of Oral Diseases National Clinical Research Center for Oral DiseasesDepartment of Cariology and EndodonticsWest China Hospital of StomatologySichuan UniversityChengdu 610041Sichuan ProvinceChina

Regenerative endodontics(RE)therapy means physiologically replacing damaged pulp tissue and regaining functional dentin–pulp complex.Current clinical RE procedures recruit endogenous stem cells from the apical papilla,periodontal tissue,bone marrow and peripheral blood,with or without application of scaffolds and growth factors in the root canal space,resulting in cementum-like and bone-like tissue formation.Without the involvement of dental pulp stem cells(DPSCs),it is unlikely that functional pulp regeneration can be achieved,even though acceptable repair can be acquired.DPSCs,due to their specific odontogenic potential,high proliferation,neurovascular property,and easy accessibility,are considered as the most eligible cell source for dentin–pulp regeneration.The regenerative potential of DPSCs has been demonstrated by recent clinical progress.DPSC transplantation following pulpectomy has successfully reconstructed neurovascularized pulp that simulates the physiological structure of natural pulp.The self-renewal,proliferation,and odontogenic differentiation of DPSCs are under the control of a cascade of transcription factors.Over recent decades,epigenetic modulations implicating histone modifications,DNA methylation,and noncoding(nc)RNAs have manifested as a new layer of gene regulation.These modulations exhibit a profound effect on the cellular activities of DPSCs.In this review,we offer an overview about Epigenetic regulation of the fate of DPSCs;in particular,on the proliferation,odontogenic differentiation,angiogenesis,and neurogenesis.We emphasize recent discoveries of epigenetic molecules that can alter DPSC status and promote pulp regeneration through manipulation over epigenetic profiles.

关键词： Dental pulp stem cells Regenerative endodontics Epigenetic regulation Noncoding RNAs Histone deacetylase inhibitor DNA methyltransferase inhibitor

Epigenetic regulation of covalently closed circular DNA minichromosome in hepatitis B virus infection

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Biophysics Reports 2020年第4期6卷 115-126页

作者： Zhaoning Wang Weiwei Wang Lanfeng Wang School of Life Sciences Shanghai University The Center for Microbes Development and Health CAS Key Laboratory of Molecular Virology & ImmunologyInstitut Pasteur of Shanghai Chinese Academy of Sciences

Hepatitis B is caused by hepatitis B virus(HBV), and persistent HBV infection is a global public health problem, with 257 million people as HBV chronic carriers. Viral covalently closed circular DNA(cccDNA) is a key factor to establish persistent infection in infected hepatocytes. Current antiviral therapies have no direct impact on pre-existing cccDNA reservoir, which can be assembled into minichromosome by hijacking host factors. Understanding the mechanisms of Epigenetic regulation in cccDNA minichromosome is crucial to develop new therapy on cccDNA, an attractive target for HBV cure. This review summarizes the current advances in Epigenetic regulation of cccDNA minichromosome, which might provide clues to novel druggable targets to cure hepatitis B by either silencing or eliminating cccDNA reservoir.

关键词： HBV cccDNA Minichromosome Epigenetic regulation

epigenetic and metabolic regulation of host-pathogen interaction

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Epigenetic and metabolic regulation of host-pathogen interac...