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Cell Research 2007年第6期17卷 512-519页

作者： lin xu li yanghai huang national laboratory of plant molecular genetics, shanghai institute of plant physiology and ecology, shanghai institutes for biological sciences, chinese academy of sciences, 300 fenglin road, shanghai 200032, china nationallaboratoryofplantmoleculargenetics ShanghaiInstituteofPlantPhysiologyandEcologyShanghaiInstitutesforBiologicalSciencesChineseAcademyofSciences300FenglinRoadShanghai200032China

Leaf morphogenesis requires the establishment of adaxial-abaxial polarity after primordium initiation from the shootapical meristem (SAM). Several families of transcription factors are known to play critical roles in promoting adaxial orabaxial leaf fate. Recently, post-transcriptional gene silencing pathways have been shown to regulate the establishmentof leaf polarity, providing novel and exciting insights into leaf development. For example, microRNAs (miR165/166)and a trans-acting siRNA (TAS3-derived tasiR-ARF) have been shown to repress the expression of several key transcrip-tion factor genes. In addition, yet another level of regulation, post-translational regulation, has been revealed recently bystudies on the role of the 26S proteasome in leaf polarity. Although our understanding regarding the molecular mecha-nisms underlying establishment of adaxial-abaxial polarity has greatly improved, there is still much that remains *** review aims to discuss recent progress, as well as the remaining questions, regarding the molecular mechanismsunderlying leaf polarity formation.

关键词： Arabidopsis leaf development polarity formation

SliDE, the Protein Interacting Domain of Imitation Switch Remodelers, Binds DDT-Domain Proteins of Different Subfamilies in Chromatin Remodeling Complexes

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Journal of Integrative plant Biology 2013年第10期55卷 928-937页

作者： Jiaqiang Dong Zheng Gao Shujing liu Guang li Zhongnan Yang Hai huang lin xu national laboratory of plant molecular genetics Institute of Plant Physiology & Ecology Shanghai Institutes for Biological Sciences the Chinese Academy of Sciences College of life and Environment sciences Shanghai Normal University

The Imitation Switch （ISWI） type adenosine triphosphate （ATP）-dependent chromatin remodeling factors are conserved proteins in eukaryotes, and some of them are known to form stable remodeling complexes with members from a family of proteins, termed DDT-domain proteins. Although it is well documented that ISWIs play important roles in different biological processes in many eukaryotic species, the molecular basis for protein interactions in ISWI complexes has not been fully addressed. Here, we report the identification of interaction domains for both ISWI and DDT-domain proteins. By analyzing CHROMATIN REMODElinG11 （CH R11） and RINGLET1 （RLT1）, an Arabidopsis thaliana ISWI （AtlSWI） and AtDDT-domain protein, respectively, we show that the SliDE domain of CHR11 and the DDT domain together with an adjacent sequence of RLT1 are responsible for their binding. The Arabidopsis genome contains at least 12 genes that encode DDT-domain proteins, which could be grouped into five subfamilies based on the sequence similarity. The SliDE domain of AtlSWI is able to bind members from different AtDDT subfamilies. Moreover, a human ISWI protein SNF2H is capable of binding AtDDT-domain proteins through its SliDE domain, suggesting that binding to DDT-domain proteins is a conserved biochemical function for the SliDE domain of ISWIs in eukaryotes.

关键词： Arabidopsis chromatin remodeling factors DDT-domain proteins Imitation Switch protein interaction.

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Stem cell lineage in body layer specialization and vascular patterning of rice root and leaf

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Science Bulletin 2016年第11期61卷 847-858页

作者： Minhuan Zeng Bo Hu Jiqin li Guifang Zhang Ying Ruan Hai huang Hua Wang lin xu national laboratory of plant molecular genetics Institute of Plant Physiology and Ecology Shanghai Institutes for Biological Sciences Chinese Academy of Sciences Shanghai 200032China Hunan Provincial Key laboratory of Crop Germplasm Innovation and Utilization Hunan Agricultural UniversityChangsha 410128 China

Since the first appearance of vascular plants during evolution, the plant body has become specialized for adaption to land conditions. Much of our knowledge of plant body specialization and the origins of tissues from stem cells have been obtained from studies on the dicot Arabidopsis thaliana. However, less is known about plant body specialization in monocots, another important branch of angiosperms. In this study, we analyzed stem cell lineage and differentiation during development of the root and leaf of the monocot model plant rice(Oryza sativa). Our results showed that three body layers of rice are established from stem cells accompanied by progressively reduced pluripotency. Layer 1(L1) is a single-cell layer of epidermis; L2 is the cortex/endodermis in the root and the mesophyll in the leaf; and L3 is the site of vascular initiation. At least two common steps in vascular development are shared between rice root and leaf. The preprocambium divides to form the procambium and root pericycle or leaf outer sheath. The procambium further differentiates into the xylem, phloem and circumambient cells. We found that the outer sheath of leaf vascular bundles originates not only from the preprocambium of L3,but also from the mesophyll precursor cells of L2. In addition, WUSCHEL-RELATED HOMEOBOX(WOX)genes are expressed in not only the stem cell niche but also metaxylem precursor in rice. This pattern differs from that of homologs in Arabidopsis, suggesting that WOX functions have been recruited in different stem cells in dicots and monocots.

关键词： Oryza sativa Stem cell Body layer Preprocambium Vascular development WOX

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Genome analysis of Taraxacum kok-saghyz Rodin provides new insights into rubber biosynthesis

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national Science Review 2018年第1期5卷 78-87页

作者： Tao lin Xia xu Jue Ruan Shizhong liu Shigang Wu Xiujuan Shao Xiaobo Wang lin Gan Bi Qin Yushuang Yang Zhukuan Cheng Suhua Yang Zhonghua Zhang Guosheng Xiong Sanwen huang Hong Yu Jiayang li State Key laboratory of plant Genomics and national Center for plant Gene Research Institute of Genetics and Developmental BiologyChinese Academy of Sciences Genome Analysis laboratory of the Ministry of Agriculture Agricultural Genomics Institute at ShenzhenChinese Academy of Agricultural Sciences The Key laboratory of Biology and Genetic Resources of Rubber Tree Rubber Research InstituteChinese Academy of Tropical Agricultural Sciences Key laboratory of plant molecular physiology Institute of BotanyChinese Academy of Sciences Key laboratory of Biology and Genetic Improvement of Horticultural Crops of the Ministry of Agriculture Sino-Dutch Joint Laboratory of Horticultural GenomicsInstitute of Vegetables and FlowersChinese Academy of Agricultural Sciences University of the chinese academy of sciences

The Russian dandelion Taraxacum kok-saghyz Rodin(TKS), a member of the Composite family and a potential alternative source of natural rubber(NR) and inulin, is an ideal model system for studying rubber biosynthesis. Here we present the draft genome of TKS, the first assembled NR-producing weed plant. The draft TKS genome assembly has a length of 1.29 Gb, containing 46 731 predicted protein-coding genes and68.56% repeats, in which the LTR-RT elements predominantly contribute to the genome enlargement. We analyzed the heterozygous regions/genes, suggesting its possible involvement in inbreeding *** comparative studies between rubber-producing and non-rubber-producing plants, we found that enzymes of the mevalonate(MVA) pathway and rubber elongation might be critical for rubber biosynthesis, and several key isoforms have been isolated and shown to be predominantly expressed in the latex, indicating their crucial functions in rubber biosynthesis. Moreover, for two important families in rubber elongation, the CPT/CPTL and REF/SRPP families, diverse evolutionary tracks have been revealed. These results provide valuable resources and new insights into the mechanism of NR biosynthesis,and facilitate the development of alternative NR-producing crops.

关键词： Taraxacum kok-saghyz genomics rubber biosynthesis CPT/CPTL REF/SRPP

Single-cell RNA sequencing reveals a hierarchical transcriptional regulatory network of terpenoid biosynthesis in cotton secretory glandular cells

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molecular plant 2023年第12期16卷 1990-2003页

作者： Jia-ling lin Longxian Chen Wen-Kai Wu Xiao-Xiang Guo Cheng-Hui Yu Min xu Gui-Bin Nie Jun-ling Dun Yan li Baofu xu ling-Jian Wang Xiao-Ya Chen Wei Gao Jin-Quan huang State Key laboratory of plant molecular genetics CAS Center for Excellence in Molecular Plant SciencesShanghai Institute of Plant Physiology and EcologyUniversity of CASChinese Academy of SciencesShanghai 200032China School of life Science and Technology ShanghaiTech UniversityShanghai 200031China Chongqing Key laboratory of Micro-Nano Systems and Intlligent Transduction Collaborative InnovationNational Research Base of Inteligent Manufacturing ServiceChongqing Technology and Business UniversityChongqing 400067China Analytical Applications Center Shimadzu(China)Co.Ltd.Shanghai 200233China Shandong laboratory of Yantai Drug Discovery Bohai Rim Advanced Research Insttute for Drug DiscoveryYantai 264117ShandongChina State Key laboratory of Drug Research Shanghai Institute of Materia MedicaChinese Academy of SciencesShanghai 201203China shanghai Key laboratory of plant Functional Genomics and Resources Shanghai Chenshan Botanical GardenShanghai 201602China national Key laboratory of Cotton Bio-breeding and Integrated Utilization(Henan University) Henan 475004China

plants can synthesize a wide range of terpenoids in response to various environmental ***,the specific regulatory mechanisms governing terpenoid biosynthesis at the cellular level remain largely *** this study,we employed single-cell RNA sequencing to comprehensively characterize the transcriptome profile of cotton leaves and established a hierarchical transcriptional network regulating cellspecific terpenoid *** observed substantial expression levels of genes associated with the biosynthesis of both volatile terpenes(such asβ-caryophyllene andβ-myrcene)and non-volatile gossypol-type terpenoids in secretory glandular ***,two novel transcription factors,namely GoHSFA4a and GoNAC42,are identified to function downstream of the Gossypium PIGMENT GLAND FORMATION *** transcription factors could directly regulate the expression of terpenoid biosynthetic genes in secretory glandular cells in response to developmental and environmental *** convenient retrieval of the single-cell RNA sequencing data generated in this study,we developed a user-friendly web *** findings not only offer valuable insights into the precise regulation of terpenoid biosynthesis genes in cotton leaves but also provide potential targets for cotton breeding endeavors.

关键词： hierarchical network cotton

Fungal diversity notes 1151-1276:taxonomic and phylogenetic contributions on genera and species of fungal taxa

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Fungal Diversity 2020年第1期100卷 5-277页

作者： Kevin DHyde Yang Dong Rungtiwa Phookamsak Rajesh Jeewon DJayarama Bhat EBGareth Jones Ning‑Guo liu Pranami DAbeywickrama Ausana Mapook Deping Wei Rekhani HPerera Ishara SManawasinghe Dhandevi Pem Digvijayini Bundhun Anuruddha Karunarathna Anusha HEkanayaka Dan‑Feng Bao Junfu li Milan CSamarakoon Napalai Chaiwan Chuan‑Gen lin Kunthida Phutthacharoen Sheng‑Nan Zhang Indunil CSenanayake Ishani DGoonasekara Kasun MThambugala Chayanard Phukhamsakda Danushka STennakoon Hong‑Bo Jiang Jing Yang Ming Zeng Naruemon Huanraluek Jian‑Kui(Jack)liu Subodini NWijesinghe Qing Tian Saowaluck Tibpromma Rashika SBrahmanage Saranyaphat Boonmee Shi‑Ke huang Vinodhini Thiyagaraja Yong‑Zhong Lu Ruvishika SJayawardena Wei Dong Er‑Fu Yang Sanjay KSingh Shiv Mohan Singh Shiwali Rana Sneha SLad Garima Anand Bandarupalli Devadatha MNiranjan VVenkateswara Sarma Kare liimatainen 馻‑ Tuula Niskanen Andy Overall Renato Lúcio Mendes Alvarenga Tatiana Baptista Gibertoni Walter PPfliegler EnikőHorváth Alexandra Imre Amanda Lucia Alves Ana Carla da Silva Santos Patricia Vieira Tiago Timur SBulgakov Dhanushaka NWanasinghe Ali HBahkali Mingkwan Doilom Abdallah MElgorban Sajeewa SNMaharachchikumbura Kunhiraman CRajeshkumar Danny Haelewaters Peter EMortimer Qi Zhao Saisamorn Lumyong Jianchu xu Jun Sheng Key laboratory for plant Diversity and Biogeography of East Asia Kunming Institute of BotanyChinese Academy of SciencesKunming 650201YunnanChina State Key laboratory for Conservation and Utilization of Bio‑Resources in Yunnan Yunnan Agricultural UniversityKunming 650201China Yunnan Research institute for Local Plateau Agriculture and Industry Kunming 650201China Key laboratory for Agro‑biodiversity and Pest Control of Ministry of Education Yunnan Agricultural UniversityKunming 650201China Center of Excellence in Fungal Research Mae Fah Luang UniversityChiang Rai 57100Thailand East and Central Asia Regional Office World Agroforestry Centre(ICRAF)Kunming 650201YunnanChina Centre for Mountain Futures(CMF) Kunming Institute of BotanyKunming 650201YunnanChina Mushroom Research Foundation 128 M.3 Ban Pa Deng T.Pa PaeA.Mae TaengChiang Mai 50150Thailand Department of Health sciences Faculty of ScienceUniversity of MauritiusReduitMauritius No.128/1‑J Azad Co‑Op Housing SocietyCurcaGoa Velha 403108India Department of Entomology and plant Pathology Faculty of AgricultureChiang Mai UniversityChiang Mai 50200Thailand Department of Botany and Microbiology College of ScienceKing Saud UniversityP.O.Box 2455Riyadh 11451Kingdom of Saudi Arabia School of Science Mae Fah Luang UniversityChiang Rai 57100Thailand Faculty of Agriculture National Resources and EnvironmentNaresuan UniversityPhitsanulok 65000Thailand Beijing Key laboratory of Environment Friendly Management on Fruit Diseases and Pests in North china Institute of Plant and Environment ProtectionBeijing Academy of Agriculture and Forestry SciencesBeijing 100097China Department of Soil ecology UFZ-Helmholtz Centre for Environmental ResearchHalleGermany Guizhou Key laboratory of Agricultural Biotechnology Guizhou Academy of Agricultural SciencesGuiyang 550006GuizhouChina Shenzhen Key laboratory of Microbial Genetic Engineering College of Life Sciences and OceanographyShenzhen UniversityShenzhen 518060China Department of plant M

Fungal diversity notes is one of the important journal series of fungal taxonomy that provide detailed descriptions and illustrations of new fungal taxa,as well as providing new information of fungal taxa *** article is the 11th contribution to the fungal diversity notes series,in which 126 taxa distributed in two phyla,six classes,24 orders and 55 families are described and *** in this study were mainly collected from Italy by Erio Camporesi and also collected from china,India and Thailand,as well as in some other European,North American and South American *** described in the present study include two new families,12 new genera,82 new species,five new combinations and 25 new records on new hosts and new geographical distributions as well as sexual-asexual *** two new families are Eriomycetaceae(Dothideomycetes,family incertae sedis)and Fasciatisporaceae(Xylariales,Sordariomycetes).The twelve new genera comprise Bhagirathimyces(Phaeosphaeriaceae),Camporesiomyces(Tubeufiaceae),Eriocamporesia(Cryphonectriaceae),Eriomyces(Eriomycetaceae),Neomonodictys(Pleurotheciaceae),Paraloratospora(Phaeosphaeriaceae),Paramonodictys(Parabambusicolaceae),Pseudoconlarium(Diaporthomycetidae,genus incertae sedis),Pseudomurilentithecium(Lentitheciaceae),Setoapiospora(Muyocopronaceae),Srinivasanomyces(Vibrisseaceae)and Xenoanthostomella(Xylariales,genera incertae sedis).The 82 new species comprise Acremonium chiangraiense,Adustochaete nivea,Angustimassarina camporesii,Bhagirathimyces himalayensis,Brunneoclavispora camporesii,Camarosporidiella camporesii,Camporesiomyces mali,Camposporium appendiculatum,Camposporium multiseptatum,Camposporium septatum,Canalisporium aquaticium,Clonostachys eriocamporesiana,Clonostachys eriocamporesii,Colletotrichum hederiicola,Coniochaeta vineae,Conioscypha verrucosa,Cortinarius ainsworthii,Cortinarius aurae,Cortinarius britannicus,Cortinarius heatherae,Cortinarius scoticus,Cortinarius subsaniosus,Cytospora fusispor

关键词： 96 new taxa Agaricomycetes Ascomycota Basidiomycota Dothideomycetes Lecanoromycetes Leotiomycetes Pezizomycetes Phylogeny Saccharomycetes Taxonomy

Fungal diversity notes 491–602: taxonomic and phylogenetic contributions to fungal taxa

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Fungal Diversity 2017年第2期83卷 1-261页

作者： Saowaluck Tibpromma Kevin D.Hyde Rajesh Jeewon Sajeewa S.N.Maharachchikumbura Jian-Kui liu D.Jayarama Bhat E.B.Gareth Jones Eric H.C.McKenzie Erio Camporesi Timur S.Bulgakov Mingkwan Doilom AndreLuiz Cabral Monteiro de Azevedo Santiago Kanad Das Patinjareveettil Manimohan Tatiana B.Gibertoni Young Woon lim Anusha Hasini Ekanayaka Benjarong Thongbai Hyang Burm Lee Jun-Bo Yang Paul M.Kirk Phongeun Sysouphanthong Sanjay K.Singh Saranyaphat Boonmee Wei Dong K.N.Anil Raj K.P.Deepna Latha Rungtiwa Phookamsak Chayanard Phukhamsakda Sirinapa Konta Subashini C.Jayasiri Chada Norphanphoun Danushka S.Tennakoon Junfu li Monika C.Dayarathne Rekhani H.Perera Yuanpin Xiao Dhanushka N.Wanasinghe Indunil C.Senanayake Ishani D.Goonasekara N.Ide Silva Ausana Mapook Ruvishika S.Jayawardena Asha J.Dissanayake Ishara S.Manawasinghe K.W.Thilini Chethana Zong-Long Luo Kalani Kanchana Hapuarachchi Abhishek Baghela Adriene Mayra Soares Alfredo Vizzini Angelina Meiras-Ottoni Armin Mesic Arun Kumar Dutta Carlos Alberto Fragoso de Souza Christian Richter Chuan-Gen lin Debasis Chakrabarty Dinushani A.Daranagama Diogo Xavier lima Dyutiparna Chakraborty Enrico Ercole Fang Wu Giampaolo Simonini Gianrico Vasquez Gladstone Alves da Silva Helio Longoni Plautz Jr Hiran A.Ariyawansa Hyun Lee Ivana Kusan Jie Song Jingzu Sun Joydeep Karmakar Kaifeng Hu Kamal C.Semwal Kasun M.Thambugala Kerstin Voigt Krishnendu Acharya Kunhiraman C.Rajeshkumar Leif Ryvarden Margita Jadan MdIqbal Hosen Michal Miksık Milan C.Samarakoon Nalin N.Wijayawardene Nam Kyu Kim Neven Matocec Paras Nath Singh Qing Tian R.P.Bhatt Rafael JoseVilela de Oliveira Rodham E.Tulloss S.Aamir Saithong Kaewchai Sayali D.Marathe Sehroon Khan Sinang Hongsanan Sinchan Adhikari Tahir Mehmood Tapas Kumar Bandyopadhyay Tatyana YuSvetasheva Thi Thuong Thuong Nguyen Vladimır Antonın Wen-Jing li Yong Wang Yuvraj Indoliya Zdenko Tkalcec Abdallah M.Elgorban Ali H.Bahkali Alvin M.C.Tang Hong-Yan Su huang Zhang Itthayakorn Promputtha Jennifer Luangsa-ard Jianchu xu Jiye Yan Kang Ji-Chuan Marc Stadler Pete Key laboratory for plant Diversity and Biogeography of East Asia Kunming Institute of BotanyChinese Academy of ScienceKunming 650201YunnanPeople’s Republic of China Center of Excellence in Fungal Research Mae Fah Luang UniversityChiang Rai 57100Thailand School of Science Mae Fah Luang UniversityChiang Rai 57100Thailand World Agroforestry Centre East and Central AsiaKunming 650201YunnanPeople’s Republic of China Mushroom Research Foundation 128 M.3 Ban Pa Deng T.Pa PaeA.Mae TaengChiang Mai 50150Thailand A.M.B.Gruppo Micologico Forlivese“Antonio Cicognani” Via Roma 18Forlı`Italy A.M.B.Circolo Micologico“Giovanni Carini” C.P.314BresciaItaly Societa`per gli Studi Naturalistici della Romagna C.P.144BagnacavalloRAItaly Formerly Department of Botany Goa UniversityTaleigaoGoaIndia No.128/1-J Azad Housing SocietyCurcaGoa VelhaIndia 33 B St.Edwards road Southsea Hants Hampshire PO53DHUK Landcare Research Manaaki Whenua Private Bag 92170AucklandNew Zealand Department of Biology Faculty of ScienceChiang Mai UniversityChiang Mai 50200Thailand Division of Applied Science College of International EducationThe Hong Kong Baptist UniversityHong Kong SARChina PostGraduate Program in Biology of Fungi Department of MycologyFederal University of PernambucoAv.Nelson Chavess/nRecifePE 50670-420Brazil institute of plant and Environment Protection Beijing Academy of Agriculture and Forestry SciencesBeijing 100097People’s Republic of China Environmental Microbiology Lab Division of Food TechnologyBiotechnology&AgrochemistryCollege of Agriculture and Life SciencesChonnam National UniversityYongbong-Dong 300Buk-GuGwangju 61186Korea Guizhou Key laboratory of Agricultural Biotechnology Guizhou Academy of Agricultural SciencesGuiyang 550006GuizhouPeople’s Republic of China College of Agriculture and biological sciences Dali UniversityDali 671003YunnanPeople’s Republic of China Yunnan institute of Food Safety Kunming University of Science&TechnologyKunming 650500YunnanPeople’s Republic

This is a continuity of a series of taxonomic and phylogenetic papers on the fungi where materials were collected from many countries,examined and *** addition to extensive morphological descriptions and appropriate asexual and sexual connections,DNA sequence data are also analysed from concatenated datasets to infer phylogenetic relationships and substantiate systematic positions of taxa within appropriate ***ever new species or combinations are proposed,we apply an integrative approach using morphological and molecular data as well as ecological features wherever *** on 112 fungal taxa are compiled in this paper including Biatriosporaceae and Roussoellaceae,Didysimulans ***.,81 new species,18 new host records and new country records,five reference specimens,two new combinations,and three sexual and asexual morph *** new species are Amanita cornelii,***,Angustimassarina alni,***,***,***,***,Ascochyta italica,***,Austroboletus appendiculatus,Barriopsis thailandica,Berkleasmium ariense,Calophoma petasitis,Camarosporium laburnicola,***,***,***,***,Colletotrichum sambucicola,Coprinopsis cerkezii,Cytospora gelida,Dacrymyces chiangraiensis,Didysimulans italica,***,Entodesmium italica,Entoloma magnum,Evlachovaea indica,Exophiala italica,Favolus gracilisporus,Femsjonia monospora,Fomitopsis flabellata,***,Gongronella brasiliensis,Helvella crispoides,Hermatomyces chiangmaiensis,***nae,Hysterium centramurum,Inflatispora caryotae,Inocybe brunneosquamulosa,***,***,Keissleriella cirsii,Lepiota cylindrocystidia,***,***,Lophiotrema guttulata,Marasmius luculentus,Morenoina calamicola,Moelleriella thanathonensis,Mucor stercorarius,Myrmecridium fluviae,Myrothecium septentrionale,Neosetophoma garethjonesii,Nigrograna cangshanensis,Nodulosphaeria guttulatum,***tata,***,Panus subf

关键词： Agaricomycetes Ascomycota Basidiomycota Dacrymycetes Dothideomycetes Eurotiomycetes New combination Mucoromycotina New genus New records New species Pezizomycetes Phylogeny Sordariomycetes Taxonomy