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Woody plant cell walls:Fundamentals and utilization

Molecular plant 2024年第1期17卷 112-140页

作者： Wei Li Ying-Chung Jimmy Lin Ying-Lan Chen Chenguang Zhou Shuang Li Nette De Ridder Dyoni M.Oliveira Lanjun Zhange Baocai Zhang Jack P.Wang Changzheng Xu Xiaokang Fu Keming Luo Ai-Min Wu Taku Demura Meng-Zhu Lu Yihua Zhou Laigeng Li Toshiaki Umezawa Wout Boerjan Vincent L.Chiang State Key Laboratory of Tree Genetics and Breeding Northeast Forestry UniversityHarbin 150040China department of Life Science National Taiwan UniversityTaipeiTaiwanChina department of biotechnology and Bioindustry sciences College of Bioscience and BiotechnologyNational Cheng Kung UniversityTainanTaiwanChina department of plant biotechnology and Bioinformatics Ghent UniversityTechnologiepark 719052 GhentBelgium VIB Center for plant Systems Biology Technologiepark 719052 GhentBelgium State Key Laboratory of plant Genomics Insttute of Genetics and Developmental Biology Chinese Academy of SciencesBeijing 100101China University of Chinese Academy of sciences Beijing 100049China Forest biotechnology Group Department of Forestry and Environmental ResourcesNorth Carolina State UniversityRaleighNC 27695USA Chongqing Key Laboratory of plant Resource Conservation and Germplasm Innovation Integrative Science Center of Germplasm CreationSchool of Life SciencesSouthwest UniversityChongqing 400715China Guangdong Key Laboratory for Innovative Developmentand Utilization of Forest plant Germplasm College of Forestry and Landscape ArchitecturesSouth China Agricultural UniversityGuangzhou510642China Center for Digital Green-innovation Nara Institute of Science and TechnologykomaNara 630-0192Japan State Key Laboratory of Subtropical Siviculture College of Forestry and BiotechnologyZhejang A&F UniversityHangzhou 311300China CAS Center for Excellence in Molecular plant sciences Chinese Academy of Sciences300 Fenglin RoadShanghai 200032China Laboratoryof MetabolicScienceofForest plants and Microorganisms Rsearch Institute for Sustainable HumanosphereKyoto UniversityUjiKyoto 611-0011 Japan

Cell walls in plants,particularly forest trees,are the major carbon sink of the terrestrial ecosystem.Chemical and biosynthetic features of plant cell walls were revealed early on,focusing mostly on herbaceous model species.Recent developments in genomics,transcriptomics,epigenomics,transgenesis,and associated analytical techniques are enabling novel insights into formation of woody cell walls.Here,we review multilevel regulation of cell wall biosynthesis in forest tree species.We highlight current approaches to engineering cell walls as potential feedstock for materials and energy and survey reported field tests of such engineered transgenic trees.We outline opportunities and challenges in future research to better understand cell type biogenesis for more efficient wood cell wall modification and utilization for biomaterials or for enhanced carbon capture and storage.

关键词： regulation of cell wall formation biosynthesis of cell wall components lignin cellulose hemicellulose cell wall utilization

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ANNEXIN 8 negatively regulates RPW8.1-mediated cell death and disease resistance in Arabidopsis

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Journal of Integrative plant Biology 2021年第2期63卷 378-392页

作者： Zhi-Xue Zhao Yong-Ju Xu Yang Lei Qin Li Ji-Qun Zhao Yan Li Jing Fan Shunyuan Xiao Wen-Ming Wang Rice research institute and Key Laboratory for Major Crop Diseases Sichuan Agricultural UniversityChengdu 611130China institute for bioscience and biotechnology research&department of plant Science and landscape architecture University of MarylandRockvilleMaryland 20850USA

Study on the regulation of broad-spectrum resistance is an active area in plant biology. RESISTANCE TO POWDERY MILDEW 8.1(RPW8.1)is one of a few broad-spectrum resistance genes triggering the hypersensitive response(HR) to restrict multiple pathogenic infections. To address the question how RPW8.1 signaling is regulated,we performed a genetic screen and tried to identify mutations enhancing RPW8.1-mediated HR.Here, we provided evidence to connect an annexin protein with RPW8.1-mediated resistance in Arabidopsis against powdery mildew. We isolated and characterized Arabidopsis b7-6 mutant.A point mutation in b7-6 at the At5 g12380 locus resulted in an amino acid substitution in ANNEXIN8(AtANN8). Loss-of-function or RNA-silencing of AtANN8 led to enhanced expression of RPW8.1,RPW8.1-dependent necrotic lesions in leaves, and defense against powdery mildew. Conversely,over-expression of AtANN8 compromised RPW8.1-mediated disease resistance and cell death. Interestingly, the mutation in AtANN8 enhanced RPW8.1-triggered H2O2. In addition, mutation in AtANN8 led to hypersensitivity to salt stress. Together, our data indicate that AtANN8 is involved in multiple stress signaling pathways and negatively regulates RPW8.1-mediated resistance against powdery mildew and cell death, thus linking ANNEXIN’s function with plant immunity.

关键词： AtANN8 cell death disease resistance H2O2 hypersensitive response powdery mildew RPW8.1

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Protein trafficking during plant innate immunity

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Journal of Integrative plant Biology 2016年第4期58卷 284-298页

作者： Wen-Ming Wang Peng-Qiang Liu Yong-Ju Xu Shunyuan Xiao Rice research institute & Key Laboratory for Major Crop Diseases Sichuan Agricultural University institute for bioscience and biotechnology research & department of plant Science and landscape architecture University of Maryland

plants have evolved a sophisticated immune system to fight against pathogenic microbes. Upon detection of pathogen invasion by immune receptors, the immune system is turned on, resulting in production of antimicrobial molecules including pathogenesis-related（PR） proteins.Conceivably, an efficient immune response depends on the capacity of the plant cell＇s protein/membrane trafficking network to deploy the right defense-associated molecules in the right place at the right time. Recent research in this area shows that while the abundance of cell surface immune receptors is regulated by endocytosis, many intracellular immune receptors, when activated, are partitioned between the cytoplasm and the nucleus for induction of defense genes and activation of programmed cell death, respectively. Vesicle transport is an essential process for secretion of PR proteins to the apoplastic space and targeting of defense-related proteins to the plasma membrane or other endomembrane compartments. In this review, we discuss the various aspects of protein trafficking during plant immunity, with a focus on the immunity proteins on the move and the major components of the trafficking machineries engaged.

关键词： Endocytic trafficking nucleocytoplasmic partitioning programmed cell death small GTPase SNARE vesicle transport

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The H3K9me2-binding protein AGDP3 limits DNA methylation and transcriptional gene silencing in Arabidopsis

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Journal of Integrative plant Biology 2022年第12期64卷 2385-2395页

作者： Xuelin Zhou Mengwei Wei Wenfeng Nie Yue Xi Li Peng Qijie Zheng Kai Tang Viswanathan Satheesh Yuhua Wang Jinyan Luo Xuan Du Rui Liu Zhenlin Yang Honggui La Yingli Zhong Yu Yang Jian-Kang Zhu Jiamu Du Mingguang Lei Shanghai Center for plant Stress Biology CAS Center for Excellence in Molecular Plant SciencesChinese Academy of SciencesShanghai 201602China University of Chinese Academy of sciences Beijing 100049China department of Horticulture College of Horticulture and Plant ProtectionYangzhou UniversityYangzhou 225009China department of Horticulture&landscape architecture Purdue UniversityWest LafayetteIdiana47906USA Key Laboratory of Molecular Design for plant Cell Factory of Guangdong Higher Education institutes Institute of Plant and Food ScienceSchool of Life SciencesSouthern University of Science and TechnologyShenzhen 518055China College of bioscience and biotechnology Hunan Agricultural UniversityChangsha 410128China

DNA methylation,a conserved epigenetic mark,is critical for tuning temporal and spatial gene expression.The Arabidopsis thaliana DNA glycosylase/lyase REPRESSOR OF SILENCING 1(ROS1)initiates active DNA demethylation and is required to prevent DNA hypermethylation at thousands of genomic loci.However,how ROS1 is recruited to specific loci is not well understood.Here,we report the discovery of Arabidopsis AGENET Domain Containing Protein 3(AGDP3)as a cellular factor that is required to prevent gene silencing and DNA hypermethylation.AGDP3 binds to H3K9me2 marks in its target DNA via its AGD12 cassette.Analysis of the crystal structure of the AGD12 cassette of AGDP3 in complex with an H3K9me2 peptide revealed that dimethylated H3 K9 and unmodified H3 K4 are specifically anchored into two different surface pockets.A histidine residue located in the methyllysine binding aromatic cage provides AGDP3 with pH-dependent H3K9me2 binding capacity.Our results uncover a molecular mechanism for the regulation of DNA demethylation by the gene silencing mark H3K9me2.

关键词： AGDP3 DNA demethylation epigenetics H3K9me2 ROS1

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Innovations and stepwise evolution of CBFs/DREB1s and their regulatory networks in angiosperms

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Journal of Integrative plant Biology 2022年第11期64卷 2111-2125页

作者： Yuqi Nie Liangyu Guo Fuqiang Cui Yirong Shen Xiaoxue Ye Deyin Deng Shuo Wang Jianhua Zhu Wenwu Wu State Key Laboratory of Subtropical Silviculture School of Forestry and BiotechnologyZhejiang A&F UniversityHangzhou 311300China institute of Tropical biosciences and biotechnology Chinese Academy of Tropical Agricultural SciencesHaikou 571101China School of Life sciences Anhui Agricultural UniversityHefei 230036China department of plant Science and landscape architecture University of MarylandCollege ParkMaryland 20742USA

The C-repeat binding factors/dehydrationresponsive element binding protein 1 s(CBFs/DREB1 s)have been identified as major regulators of cold acclimation in many angiosperm plants.However,their origin and evolutionary process associated to cold responsiveness are still lacking.By integrating multi-omics data of genomes,transcriptomes,and CBFs/DREB1 s genome-wide binding profiles,we unveil the origin and evolution of CBFs/DREB1 s and their regulatory network.Gene collinearity and phylogeny analyses show that CBF/DREB1 is an innovation evolved from tandem duplication-derived DREBⅢgene.A subsequent event of e-whole genome duplication led to two CBF/DREB1 archetypes(CladesⅠandⅡ)in ancient angiosperms.In contrast to cold-insensitivity of Clade I and their parent DREBⅢgenes,CladeⅡevolved a further innovation in cold-sensitive response and was stepwise expanded in eudicots and monocots by independent duplications.In geological time,the duplication events were mainly enriched around the Cretaceous-Paleogene(K-Pg)boundary and/or in the Late Cenozoic Ice Age,when the global average temperature significantly decreased.Consequently,the duplicated CBF/DREB1 genes contributed to the rewiring of CBFs/DREB1 s-regulatory network for cold tolerance.Altogether,our results highlight an origin and convergent evolution of CBFs/DREB1 s and their regulatory network probably for angiosperms adaptation to global cooling.

关键词： CBF/DREB1 cold acclimation global cooling ice age K-Pg boundary paleotemperature tandem duplication(TD) whole genome duplication(WGD)

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CRISPR ribonucleoprotein-mediated genetic engineering in plants

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plant Communications 2021年第2期2卷 38-50页

作者： Yingxiao Zhang Brian Iaffaldano Yiping Qi department of plant Science and landscape architecture University of MarylandCollege ParkMD 20742USA institute for bioscience and biotechnology research University of MarylandRockvilleMD 20850USA

CRISPR-derived biotechnologies have revolutionized the genetic engineering field and have been widely applied in basic plant research and crop improvement.Commonly used Agrobacterium-or particle bombardment-mediated transformation approaches for the delivery of plasmid-encoded CRISPR reagents can result in the integration of exogenous recombinant DNA and potential off-target mutagenesis.Editing efficiency is also highly dependent on the design of the expression cassette and its genomic insertion site.Genetic engineering using CRISPR ribonucleoproteins(RNPs)has become an attractive approach with many advantages:DNA/transgene-free editing,minimal off-target effects,and reduced toxicity due to the rapid degradation of RNPs and the ability to titrate their dosage while maintaining high editing efficiency.Although RNP-mediated genetic engineering has been demonstrated in many plant species,its editing efficiency remains modest,and its application in many species is limited by difficulties in plant regeneration and selection.In this review,we summarize current developments and challenges in RNPmediated genetic engineering of plants and provide future research directions to broaden the use of this technology.

关键词： CRISPR RNP genetic engineering genome editing transgene free

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Hypercompact CRISPR–Cas12j2 (CasF) enables genome editing, gene activation, and epigenome editing in plants

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plant Communications 2022年第6期3卷 131-134页

作者： Shishi Liu Simon Sretenovic Tingting Fan Yanhao Cheng Gen Li Aileen Qi Xu Tang Yang Xu Weijun Guo Zhaohui Zhong Yao He Yanling Liang Qinqin Han Xuelian Zheng Xiaofeng Gu Yiping Qi Yong Zhang department of biotechnology School of Life Sciences and TechnologyCenter for Informational BiologyUniversity of Electronic Science and Technology of ChinaRoom 216Main BuildingNo.4Section 2North Jianshe RoadChengdu 610054China department of plant Science and landscape architecture University of MarylandCollege ParkMD 20742USA biotechnology research institute Chinese Academy of Agricultural SciencesBeijing 100081China institute for bioscience and biotechnology research University of MarylandRockvilleMD 20850USA

CRISPR-Cas9,-Cas12a,-Cas12b,and-Cas13 have been harnessed for genome engineering in human and plant cells(Liu et al.,2022).However,the large size of these Cas proteins(e.g.190 kDa for SpCas9)makes them difficult to deliver into cells via a viral vector.The development of smaller Cas proteins will lead to reduced viral vector sizes that can be more widely adopted in versatile genome engineering systems.Recently,a CRISPR-Cas12j2(CasF)system was discovered in huge phages and developed into a hypercompact genome editor due to the small size of Cas12j2(80 kDa)(Pausch et al.,2020).Unfortunately,the gene editing efficiency of Cas12j2 in Arabidopsis protoplasts using ribonucleoprotein delivery was less than one percent(Pausch et al.,2020).Further optimization of this system is clearly required if CRISPR-Cas12j2-mediated editing in plant genomes is to be adopted by the plant sciences community.

关键词： CRISPR activation system

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Citron C-05 inhibits both the penetration and colonization of Xanthomonas citri subsp.citri to achieve resistance to citrus canker disease

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Horticulture research 2020年第1期7卷 1981-1992页

作者： Hongyan Fu Mingming Zhao Jing Xu Limei Tan Jian Han Dazhi Li Meijun Wang Shunyuan Xiao Xianfeng Ma Ziniu Deng College of Horticulture Hunan Agricultural University410128 ChangshaHunanChina National Center for Citrus Improvement 410128 ChangshaHunanChina Hunan Horticultural research institute 410125 ChangshaHunanChina institute for bioscience and biotechnology research&department of plant sciences and landscape architecture University of Maryland College ParkRockvilleMD 20850USA

Citrus canker,caused by Xanthomonas citri subsp.citri(Xcc),is a serious bacterial disease that affects citrus production worldwide.Citron C-05(Citrus medica)is the only germplasm in the Citrus genus that has been identified to exhibit strong resistance to Xcc.However,it has not been determined when,where,and how Xcc is restricted in the tissues of Citron C-05 during the infection process.In the present study,we investigated the spatiotemporal growth dynamics of an eGFP-labeled virulent Xcc(eGFP-Xcc)strain in Citron C-05 along with five susceptible biotypes(i.e.,lemon,pummelo,sour orange,sweet orange,and ponkan mandarin)upon inoculation via the spraying or leaf infiltration of a bacterial suspension.The results from extensive confocal laser scanning microscopy analyses showed that while Xcc grew rapidly in plants of all five susceptible genotypes,Xcc was severely restricted in the epidermal and mesophyll cell layers of the leaves of Citron C-05 in the early stage of infection.Not surprisingly,resistance against Xcc in Citron C-05 was found to be associated with the production of reactive oxygen species and hypersensitive response-like cell death,as well as greater upregulation of several defense-related genes,including a pathogenesis-related gene(PR1)and a glutathione S-transferase gene(GST1),compared with sweet orange as a susceptible control.Taken together,our results not only provide further valuable details of the spatiotemporal dynamics of the host entry,propagation,and spread of Xcc in both resistant and susceptible citrus plants but also suggest that resistance to Xcc in Citron C-05 may be attributed to the activation of multiple defense mechanisms.

关键词： citrus Xanthomonas resistance

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The Jasmine(Jasminum sambac)Genome Provides Insight into the Biosynthesis of Flower Fragrances and Jasmonates

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Genomics, Proteomics & Bioinformatics 2023年第1期21卷 127-149页

作者： Gang Chen Salma Mostafa Zhaogeng Lu Ran Du Jiawen Cui Yun Wang Qinggang Liao Jinkai Lu Xinyu Mao Bang Chang Quan Gan Li Wang Zhichao Jia Xiulian Yang Yingfang Zhu Jianbin Yan Biao Jin College of Horticulture and plant Protection Yangzhou UniversityYangzhou 225009China College of bioscience and biotechnology Yangzhou UniversityYangzhou 225009China department of Floriculture Faculty of AgricultureAlexandria UniversityAlexandria 21526Egypt Key Laboratory of plant Functional Genomics of the Ministry of Education Yangzhou UniversityYangzhou 225009China Shenzhen Branch Guangdong Laboratory for Lingnan Modern AgricultureKey Laboratory of Synthetic BiologyMinistry of Agriculture and Rural AffairsAgricultural Genomics Institute at ShenzhenChinese Academy of Agricultural SciencesShenzhen 518120China College of landscape architecture Nanjing Forestry UniversityNanjing 210037China institute of plant Stress Biology State Key Laboratory of Cotton BiologyDepartment of BiologyHenan UniversityKaifeng 475001China

Jasminum sambac(jasmine flower),a world-renowned plant appreciated for its exceptional flower fragrance,is of cultural and economic importance.However,the genetic basis of its fragrance is largely unknown.Here,we present the first de novo genome assembly of J.sambac with 550.12 Mb(scaffold N50=40.10 Mb)assembled into 13 pseudochromosomes.Terpene synthase(TPS)genes associated with flower fragrance are considerably amplified in the form of gene clusters through tandem duplications in the genome.Gene clusters within the salicylic acid/benzoic acid/theobromine(SABATH)and benzylalcohol O-acetyltransferase/anthocyanin O-hydroxycinnamoyltransferases/anthranilate N-hydroxycinnamoyl/benzoyltransferase/deacetylvindoline 4-O-acetyltransferase(BAHD)superfamilies were identified to be related to the biosynthesis of phenylpropanoid/benzenoid compounds.Several key genes involved in jasmonate biosynthesis were duplicated,causing an increase in copy numbers.In addition,multi-omics analyses identified various aromatic compounds and many genes involved in fragrance biosynthesis pathways.Furthermore,the roles of JsTPS3 in b-ocimene biosynthesis,as well as JsAOC1 and JsAOS in jasmonic acid biosynthesis,were functionally validated.The genome assembled in this study for J.sambac offers a basic genetic resource for studying floral scent and jasmonate biosynthesis,and provides a foundation for functional genomic research and variety improvements in Jasminum.

关键词： Jasmine flower Jasminum sambac Genome Jasmonate Flower fragrance

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CRISPR/Cas9-mediated mutagenesis of VvMLO3 results in enhanced resistance to powdery mildew in grapevine(Vitis vinifera)

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Horticulture research 2020年第1期7卷 1200-1213页

作者： Dong-Yan Wan Ye Guo Yuan Cheng Yang Hu Shunyuan Xiao Yuejin Wang Ying-Qiang Wen State Key Laboratory of Crop Stress Biology for Arid Areas College of HorticultureNorthwest A&F UniversityYangling 712100 ShaanxiChina Key Laboratory of Horticultural plant Biology and Germplasm Innovation in Northwest China Ministry of AgricultureYangling 712100 ShaanxiChina institute for bioscience and biotechnology research&department of plant sciences and landscape architecture University of Maryland College ParkRockvilleMD 20850USA

Grapevine(Vitis vinifera),one of the most economically important fruit crops in the world,suffers significant yield losses from powdery mildew,a major fungal disease caused by Erysiphe necator.In addition to suppressing host immunity,phytopathogens modulate host proteins termed susceptibility(S)factors to promote their proliferation in plants.In this study,CRISPR/Cas9(clustered regularly interspaced short palindromic repeats/CRISPR-associated 9)technology was used to enable the targeted mutagenesis of MLO(mildew resistance Locus O)family genes that are thought to serve as S factors for powdery mildew fungi.Small deletions or insertions were induced in one or both alleles of two grapevine MLO genes,VvMLO3 and VvMLO4,in the transgenic plantlets of the powdery mildew-susceptible cultivar Thompson Seedless.The editing efficiency achieved with different CRISPR/Cas9 constructs varied from 0 to 38.5%.Among the 20 VvMLO3/4-edited lines obtained,one was homozygous for a single mutation,three harbored biallelic mutations,seven were heterozygous for the mutations,and nine were chimeric,as indicated by the presence of more than two mutated alleles in each line.Six of the 20 VvMLO3/4-edited grapevine lines showed normal growth,while the remaining lines exhibited senescence-like chlorosis and necrosis.Importantly,four VvMLO3-edited lines showed enhanced resistance to powdery mildew,which was associated with host cell death,cell wall apposition(CWA)and H2O2 accumulation.Taken together,our results demonstrate that CRISPR/Cas9 genome-editing technology can be successfully used to induce targeted mutations in genes of interest to improve traits of economic importance,such as disease resistance in grapevines.

关键词： resistance Vitis insertion

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