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Delimiting species in Basidiomycota:a review

Fungal Diversity 2021年第4期109卷 181-237页

作者： Bin Cao Danny Haelewaters nathan schoutteten Dominik Begerow Teun Boekhout Admir J.Giachini Sergio P.Gorjón Nina Gunde-Cimerman Kevin D.Hyde Martin Kemler Guo-Jie Li Dong-Mei Liu Xin-Zhan Liu Jorinde Nuytinck Viktor Papp Anton Savchenko Kyryll Savchenko Leho Tedersoo Bart Theelen Marco Thines Michal Tomšovský Merje Toome-Heller Judith P.Urón Annemieke Verbeken Alfredo Vizzini Andrey M.Yurkov Juan Carlos Zamora Rui-Lin Zhao State Key Laboratory of Mycology Institute of MicrobiologyChinese Academy of SciencesBeijing 100101China Faculty of Science University of South Bohemia37005ČeskéBudějoviceCzech Republic Research Group Mycology Department of BiologyGhent University9000 GhentBelgium Department of Botany and Plant Pathology College of AgriculturePurdue UniversityWest LafayetteIN 47907USA Department of Geobotany Ruhr-Universität Bochum44801 BochumGermany Westerdijk Fungal Biodiversity Institute 3508 AD UtrechtThe Netherlands Institute of Biodiversity and Ecosystem Dynamics University of Amsterdam1090 GE AmsterdamThe Netherlands Department of Microbiology Universidade Federal de Santa CatarinaFlorianópolisSC 88040-900Brazil Department of Botany and Plant Physiology University of Salamanca37007 SalamancaSpain Department of Biology Biotechnical FacultyUniversity of Ljubljana1000 LjubljanaSlovenia Center of Excellence in Fungal Research Mae Fah Luang UniversityChiang Rai 57100Thailand Innovative Institute of Plant Health Zhongkai University of Agriculture and EngineeringHaizhu DistrictGuangzhou 510225China CAS Key Laboratory for Plant Diversity and Biogeography of East Asia Kunming Institute of BotanyChinese Academy of ScienceKunming 650201YunnanChina Key Laboratory of Vegetable Germplasm Innovation and Utilization of Hebei Collaborative Innovation Center of VegetableCollege of HorticultureHebei Agricultural UniversityBaoding 071001Hebei ProvinceChina Institute of Ecology Chinese Research Academy of Environmental SciencesBeijing 100012China Naturalis Biodiversity Center 2300 RA LeidenThe Netherlands Department of Botany Institute of AgronomyHungarian University of Agriculture and Life Sciences1518 BudapestHungary Institute of Ecology&Earth Sciences University of Tartu51014 TartuEstonia Department of Biological Sciences Butler UniversityIndianapolisIN 46219USA Center of Mycology and Microbiology University of Tartu14a Ravila50411 TartuEstonia Senckenberg Biodiversity and Climate Researc

Species delimitation is one of the most fundamental processes in *** undertakings,for instance,require explicit species concepts and criteria for species delimitation in order to be relevant and ***,a perfect species concept does not exist for ***,we review the species concepts commonly used in Basidiomycota,the second largest phylum of Fungi that contains some of the best known species of mushrooms,rusts,smuts,and jelly *** general,best practice is to delimitate species,publish new taxa,and conduct taxonomic revisions based on as many independent lines of evidence as possible,that is,by applying a so-called unifying(or integrative)conceptual ***,the types of data used vary considerably from group to *** this reason we discuss the different classes of Basidiomycota,and for each provide:(i)a general introduction with difficulties faced in species recognition,(ii)species concepts and methods for species delimitation,and(iii)community recommendations and conclusions.

关键词： Biological species concept Morphological species concept Phylogenetic species concept Taxonomy

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Notes,outline and divergence times of Basidiomycota

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Fungal Diversity 2019年第6期99卷 105-367页

作者： Mao-Qiang He Rui-Lin Zhao Kevin D.Hyde Dominik Begerow Martin Kemler Andrey Yurkov Eric H.C.McKenzie Olivier Raspe Makoto Kakishima Santiago Sanchez-Ramırez Else C.Vellinga Roy Halling Viktor Papp Ivan V.Zmitrovich Bart Buyck Damien Ertz Nalin N.Wijayawardene Bao-Kai Cui nathan schoutteten Xin-Zhan Liu Tai-Hui Li Yi-Jian Yao Xin-Yu Zhu An-Qi Liu Guo-Jie Li Ming-Zhe Zhang Zhi-Lin Ling Bin Cao Vladimir Antonin Teun Boekhout Bianca Denise Barbosa da Silva Eske De Crop Cony Decock Balint Dima Arun Kumar Dutta Jack W.Fell Jozsef Geml Masoomeh Ghobad-Nejhad Admir J.Giachini Tatiana B.Gibertoni Sergio P.Gorjon Danny Haelewaters Shuang-Hui He Brendan P.Hodkinson Egon Horak Tamotsu Hoshino Alfredo Justo Young Woon Lim Nelson Menolli Jr Armin Mesic Jean-Marc Moncalvo Gregory M.Mueller La szlo G.Nagy RHenrik Nilsson Machiel Noordeloos Jorinde Nuytinck Takamichi Orihara Cheewangkoon Ratchadawan Mario Rajchenberg Alexandre G.S.Silva-Filho Marcelo Aloisio Sulzbacher Zdenko Tkalcec Ricardo Valenzuela Annemieke Verbeken Alfredo Vizzini Felipe Wartchow Tie-Zheng Wei Michael WeiB Chang-Lin Zhao Paul M.Kirk State Key Laboratory of Mycology Institute of MicrobiologyChinese Academy of SciencesBeijing 100101People’s Republic of China Department of Entomology and Plant Pathology Faculty of AgricultureChiang Mai UniversityChiang Mai 50200Thailand Center of Excellence in Fungal Research Mae Fah Luang UniversityChiang Rai 57100Thailand College of Life Sciences University of Chinese Academy of SciencesHuairou DistrictBeijing 100408People’s Republic of China Ruhr-Universitat Bochum AG GeobotanikND03UniversitatsstraBe 15044801 BochumGermany Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures InhoffenstraBe 7B38124 BrunswickGermany Manaaki Whenua-Landcare Research Private Bag 92170AucklandNew Zealand Research Department Meise Botanic GardenNieuwelaan 381860 MeiseBelgium Service General de l'Enseignement superieur et de la Recherche scientifique Federation Wallonie-BruxellesLavallee 11080 BrusselsBelgium University of Tsukuba TsukubaIbaraki 305-8572Japan Department of Ecology and Evolutionary Biology University of Toronto25 Willcocks St.TorontoON M5S 3B2Canada Berkeley USA Institute of Systematic Botany The New York Botanical GardenBronxNY 10458-5126USA Department of Botany Szent Istvan University1518 BudapestHungary Komarov Botanical Institute Russian Academy of SciencesProfessor Popov st.2Saint PetersburgRussia 197376 Institut pour Systematique Ecologie Biodiversite(ISYEB UMR 7205) Sorbonne universiteMuseum National d’Histoire Naturelle CP 39CNRSDepartement Origines et Evolution12 Rue Buffon75005 ParisFrance Institute of Microbiology Beijing Forestry UniversityBeijing 100083People’s Republic of China Department of Biology Research Group MycologyGhent UniversityK.L.Ledeganckstraat 359000 GhentBelgium State Key Laboratory of Applied Microbiology Southern China Guangdong Provincial Key Laboratory of Microbial Culture Collection and ApplicationGuangdong Institute of MicrobiologyGuangzhou 510070People’s Republic of China Department of Botany Moravian Mu

The Basidiomycota constitutes a major phylum of the kingdom Fungi and is second in species numbers to the *** present work provides an overview of all validly published,currently used basidiomycete genera to date in a single *** outline of all genera of Basidiomycota is provided,which includes 1928 currently used genera names,with 1263 synonyms,which are distributed in 241 families,68 orders,18 classes and four *** provide brief notes for each accepted genus including information on classification,number of accepted species,type species,life mode,habitat,distribution,and sequence ***,three phylogenetic analyses with combined LSU,SSU,5.8s,rpb1,rpb2,and ef1 datasets for the subphyla Agaricomycotina,Pucciniomycotina and Ustilaginomycotina are conducted,*** time estimates are provided to the family level with 632 species from 62 orders,168 families and 605 *** study indicates that the divergence times of the subphyla in Basidiomycota are 406-430 Mya,classes are 211-383 Mya,and orders are 99-323 Mya,which are largely consistent with previous *** this study,all phylogenetically supported families were dated,with the families of Agaricomycotina diverging from 27-178 Mya,Pucciniomycotina from 85-222 Mya,and Ustilaginomycotina from 79-177 *** times as additional criterion in ranking provide additional evidence to resolve taxonomic problems in the Basidiomycota taxonomic system,and also provide a better understanding of their phylogeny and evolution.

关键词： Classification Molecular clock Fungi Systematics Taxonomy

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nvestigating the role of exiting vehicles and turn indicator usage in gap acceptance at single-lane roundabouts

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Frontiers of Structural and Civil Engineering 2017年第1期11卷 8-16页

作者： nathan P. BELZ Civil and Environmental Engineering University of Alaska - Fairbanks Fairbanks AK 99775-5960 USA

Roundabouts are becoming a preferred form of intersection control type due to their safety and capacity benefits. Yield control at roundabout entries inherently reduces fuel consumption and emissions when compared to other conventional intersection types. However, these benefits can be limited by poor driver behavior and judgment when entering the roundabout. This research addresses the nature of gap distributions and use of turn indicators by exiting vehicles at three single-lane roundabouts in Vermont, New York, and Alaska. Presented here is a comparison of vehicle headways measured at two different locations in each roundabout. Rejected headways are analyzed in the context of priority abstaining events when entering drivers yield to vehicles exiting on the same leg of the roundabout suggesting that ＂true＂ critical gaps are being overestimated. Results indicate that exiting vehicles, particularly those that do not use their turn indicators when departing from the major-stream of traffic have an influence on the entry decision of drivers on the same approach. This behavior is of particular concern for intersection efficiency （i.e., delay） and sustainability （i.e., excess fuel consumption and emissions）. Results prompt the consideration of more consistent guidance on and enforcement of turn indicator use during roundabout negotiations.

关键词： roundabouts exiting vehicles turn indicator use headways

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Spectral square moments of a resonance sum for Maass forms

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Frontiers of Mathematics in China 2017年第5期12卷 1183-1200页

作者： nathan SALAZAR Yangbo YE Department of Mathematics The University of Iowa Iowa City Iowa 52242-1419 USA

Let f be a Maass cusp form for Г0（N） with Fourier coefficients 1 k2. λf（n） and Laplace eigenvalue 1/4 ＋k2 For real α≠0 and β 〉 0, consider the sum Sx（f; α,β） = ∑n λf（n）e（αnβ）φ（n/X）, where φ is a smooth function of compact support. We prove bounds for the second spectral moment of Sx （f;α, β）, with the eigenvalue tending towards infinity. When the eigenvalue is sufficiently large, we obtain an average bound for this sum in terms of X. This implies that if f has its eigenvalue beyond X1/2＋ε, the standard resonance main term for Sx（f; ±2√q 1/2）, q ∈Z＋, cannot appear in general. The method is adopted from proofs of subconvexity bounds for Rankin-Selberg L-functions for GL（2） × GL（2）. It contains in particular a proof of an asymptotic expansion of a well-known oscillatory integral with an enlarged range of Kε≤ L≤ K1-ε. The same bounds can be proved in a similar way for holomorphie cusp forms.

关键词： Cusp form Maass form Fourier coefficient of cusp form Kuznetsovtrace formula resonance sum first derivative test weighted stationary phase

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Grain boundary effects in high-temperature liquid-metal dealloying: a multi-phase field study

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npj Computational Materials 2023年第1期9卷 1039-1049页

作者： nathan Bieberdorf Mark Asta Laurent Capolungo Department of Materials Science and Engineering University of CaliforniaBerkeleyCA 94720USA Materials Science and Technology Division Los Alamos National LaboratoryLos AlamosNM 87545USA

A multi-phase field model is employed to study the microstructural evolution of an alloy undergoing liquid dealloying,specifically considering the role of grain boundaries.A semi-implicit time-stepping algorithm using spectral methods is implemented,which enables simulating large 2D and 3D domains over long time scales while still maintaining a realistic interfacial *** reveal a mechanism of coupled grain–boundary migration to maintain equilibrium contact angles with the topologically complex solid–liquid interface,which locally accelerates diffusion-coupled growth of a liquid channel into the *** mechanism asymmetrically disrupts the ligament connectivity of the dealloyed structure in qualitative agreement with published experimental *** grain boundary migration-assisted corrosion channels form even for precursors with small amounts of the dissolving alloy species,below the parting *** activation of this grain boundary dealloying mechanism depends strongly on grain boundary mobility.

关键词： alloying grain alloy

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MicroRNA deregulation and cancer and medicinal plants as microRNA regulator

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Asian Pacific Journal of Tropical Biomedicine 2020年第2期10卷 47-53页

作者： nathan Shanmugapriya Sreenivasan Sasidharan Institute for Research in Molecular Medicine Universiti Sains Malaysia11800 GelugorPulau PinangMalaysia

MircroRNAs(mi RNAs)are short non-coding RNAs with a length of approximately 20-22 nucleotides,which interact with their target mRNAs at 3’-untranslated region by partial *** miRNAm-RNA interaction leads to induction of mRNA degradation and eventually translational ***,mi RNAs play an important role in virtually all cellular processes,especially differentiation,proliferation,migration,and *** deregulation of miRNAs may lead to serious diseases including *** is mounting evidence demonstrating the participation of mi RNA regulation during *** this review,we discuss an updated miRNA biogenesis,mechanisms involved in their deregulation,and their role in cancer *** review also summarizes updated information on potential medicinal plants which regulate miRNA expression as a promising molecular miRNA therapeutic approach for cancers.

关键词： MiRNA Biogenesis Cancer Medicinal plants

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Evaluation on the Two Filling Functions for the Recovery of Forest Information in Mountainous Shadows on Landsat ETM + Image

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Journal of Mountain Science 2011年第3期8卷 414-426页

作者： SHAHTAHMASSEBI Amir reza MOORE nathan Institute of Agriculture Remote Sensing and Information Technology Zhejiang University Key Laboratory of Agricultural Remote Sensing and Information System of Zhejiang Province Department of Geography Michigan State University

In general,topographic shadow may reduce performance of forest mapping over mountainous regions in remotely sensed *** this paper,information in shadow was synthesized by using two filling techniques,namely,roifill and imfill,in order to improve the accuracy of forest mapping over mountainous *** two methods were applied to Landsat Enhanced Thematic Mapper (ETM +) multispectral image from Dong Yang County,Zhejiang Province,*** performance of these methods was compared with two conventional techniques,including cosine correction and multisource *** results showed that by applying filling approaches,average overall accuracy of classification was improved by 14 ***,through conventional methods this value increased only by 9 *** results also revealed that estimated forest area on the basis of shadow-corrected images by 'roifill' technique was much closer to the survey data compared to traditional *** from this finding,our finding indicated that topographic shadow was an accentuated problem in medium resolution images such as Landsat ETM+ over mountainous regions.

关键词： Shadow Imfill: Roifill: Landsat ETM+

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LEUNIG_HOMOLOG and LEUNIG Regulate Seed Mucilage Extrusion in Arabidopsis

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Journal of Integrative Plant Biology 2011年第5期53卷 399-408页

作者： Minh Bui nathan Lim Paja Sijacic Department of Cell Biology and Molecular Genetics University of MarylandCollege ParkMaryland 20742USA

LEUNIG （LUG） and LEUNIG_HOMOLOG （LUH） encode two closely related Arabidopsis proteins, belonging to the Gro/TLE family of transcriptional co-repressors. These two genes were previously shown to exhibit partially overlapping functions in embryo and flower development. In this report, the role of both LUH and LUG on seed mucilage extrusion was examined. Seed mucilage extrusion occurs after the seeds are imbibed, serving as functional aid in seed hydration, germination, and dispersal. While luh-1 mutants exhibited strong defects in seed mucilage extrusion, lug-3 mutants exhibited a minor phenotype in mucilage extrusion. Further characterization indicates that luh-1 does not exhibit any obvious defect in seed epidermal cell differentiation, mucilage synthesis, or mucilage deposition, suggesting a specific role of LUH in mucilage extrusion. This seed mucilage phenotype of luh-1 is identical to that of mucilage modified 2 （mum2） mutants. MUM2 encodes a β-galactosidase required for the modification of the mucilage. Quantitative reverse transcription polymerase chain reaction of RNA extracted from siliques detected a slight decrease of MUM2 mRNA in the luh-1 mutant compared to the wild type. Together, LUH and possibly LUG may specifically regulate mucilage extrusion by promoting the expression of genes required for mucilage maturation.

关键词： ARABIDOPSIS PLANT proteins GENETIC transcription PLANT genetics GENETIC repressors PLANT embryology MUCILAGE PLANT mutation

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Environmental cues determine the fate of astrocytes after spinal cord injury

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Neural Regeneration Research 2017年第12期12卷 1964-1970页

作者： Fatima M.nathan Shuxin Li Shriners Hospitals Pediatric Research Center Department of Anatomy and Cell Biology Lewis Katz School of Medicine at Temple UniversityPhiladelphia PA USA

Reactive astrogliosis occurs after central nervous system（CNS） injuries whereby resident astrocytes form rapid responses along a graded continuum. Following CNS lesions, na？ve astrocytes are converted into reactive astrocytes and eventually into scar-forming astrocytes that block axon regeneration and neural repair. It has been known for decades that scarring development and its related extracellular matrix molecules interfere with regeneration of injured axons after CNS injury, but the cellular and molecular mechanisms for controlling astrocytic scar formation and maintenance are not well known. Recent use of various genetic tools has made tremendous progress in better understanding genesis of reactive astrogliosis. Especially, the latest experiments demonstrate environment-dependent plasticity of reactive astrogliosis because reactive astrocytes isolated from injured spinal cord form scarring astrocytes when transplanted into injured spinal cord, but revert in retrograde to naive astrocytes when transplanted into naive spinal cord. The interactions between upregulated type I collagen and its receptor integrin β1 and the N-cadherin-mediated cell adhesion appear to play major roles for local astrogliosis around the lesion. This review centers on the environment-dependent plasticity of reactive astrogliosis after spinal cord injury and its potential as a therapeutic target.

关键词： astrogliosis astrocyte fate scar formation spinal cord injury axon regeneration environmentcue collagen I integrin β1

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Role of the NLRP3 inflammasome in neurodegenerative diseases and therapeutic implications

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Neural Regeneration Research 2020年第7期15卷 1249-1250页

作者： Yanhui Duan nathan Kelley Yuan He Department of Biochemistry Microbiology and Immunology Wayne State University School of Medicine

Neurodegenerative diseases are a group of neuronal disorders caused by progressive neuronal cell death in different regions of the human ***'s disease(AD)and Parkinson's disease(PD)are the most common types of neurodegenerative diseases that affect millions of people *** is no cure available for either *** of the pathological hallmarks of neurodegenerative diseases is the abnormal protein aggregation in the central nervous system.

关键词： NLRP3 diseases degenerative

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