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Cryptococcus gattii infections in China： extent of the problem？

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Chinese Medical Journal 2013年第2期126卷 203-205页

作者： CHEN Min PAN Wei-hua teun boekhout Shanghai Key Laboratory of Molecular Medical Mycology Department of Dermatology Shanghai Changzheng HospitalSecond Military Medical University Shanghai 200003 China CBS-KNAW Fungal Biodiversity Centre Department of Yeast andBasidiomycete Research 3584 CT Utrecht The Netherlands

Approximately 70 species are accepted in the genus Cryptococcus; however, only two species,Cryptococcus neoformans （ C. neoformans, AD and D） and C. gattii （serotypes B responsible for almost all human infections,2,3 and resulted in over 1 million cryptococcosis in the world each year with casualties.4 It is generally assumed that serotypes A, and C） are cryptococcal new cases of over 600000 cryptococcal infections are acquired by inhalation of fungal spores, desiccated cells, or poorly encapsulated yeasts from environmental niches, such as decayed wood debris of certain tree species or bird droppings.5 Epidemiological surveys have shown that C. neoformans caused about 80% of cryptococcosis cases globally each year, particularly in immunocompromised persons, such as human immunodeficiency virus （HIV）-infected people and acquired immunodeficiency syndrome （AIDS） patients,2＇3 while C. gattii primarily infects apparently immunocompetent hosts, and is mainly responsible for the remaining cases of cryptococcosls6,7

关键词： Cryptococcus gattii: infection: China

Classification of marine Ascomycota,Basidiomycota,Blastocladiomycota and Chytridiomycota

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Fungal Diversity 2015年第4期73卷 1-72页

作者： E.B.Gareth Jones Satinee Suetrong Jariya Sakayaroj Ali H.Bahkali Mohamed A.Abdel-Wahab teun boekhout Ka-Lai Pang Department of Botany and Microbiology College of ScienceKing Saud UniversityP.O.Box:2455Riyadh 1145Saudi Arabia Fungal Biodiversity Laboratory BIOTECNational Science and Technology Development Agency(NSTDA)113 Thailand Science ParkThanon PhahonyothinTombon Khlong NuengAmphoe Khlong LuangPathum Thani 12120Thailand Department of Botany Faculty of ScienceSohag UniversitySohagEgypt CBS Fungal Biodiversity Centre(KNAW) Uppsalalaan 83584CT UtrechtThe Netherlands Institute of Marine Biology and Center of Excellence for the Oceans Taiwan Ocean University2 Pei-Ning RoadKeelung 20224TaiwanRepublic of China

This paper lists the accepted names and classification of marine fungi,updating the scheme presented in *** classification includes 1,112 species(in 472 genera):Ascomycota 805(in 352 genera),Basidiomycota 21 species(in 17 genera),Chytridiomycota and related phyla 26 species(in 13 genera),Zygomycota three(in two genera),Blastocladiomycota one species(one genus),asexual morphs of filamentous fungi 43(in 26 genera);and marine yeasts:Ascomycota 138 species(in 35 genera),Basidiomycota 75 species(in 26 genera).These fungi belong to 129 families and 65 *** Halosphaeriaceae remains the largest family of marine fungi with 141 species in 59 genera,while the most specious genera are Aspergillus(47 species),Penicillium(39 species)and the yeast genus Candida(64 species).The review includes details of recent higher order nomenclature changes,and accounts of new families,genera and species described over the past 5 years.

关键词： Fungal classification Marine fungi Molecular phylogeny New taxa Praelongicaulis gen nov Tirisporellales Torpedosporales ordo nov

Trends in yeast diversity discovery

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Fungal Diversity 2022年第3期114卷 491-537页

作者： teun boekhout Anthony S.Amend Fouad El Baidouri Toni Gabaldón József Geml Moritz Mittelbach Vincent Robert Chen Shuhui Tan Benedetta Turchetti Duong Vu Qi-Ming Wang Andrey Yurkov Westerdijk Institute of Fungal Biodiversity Uppsalalaan 83584CT UtrechtThe Netherlands Institute of Biodiversity and Ecosystems Dynamics(IBED) University of AmsterdamSciencepark 9041098 XH AmsterdamThe Netherlands School of Life Sciences University of Hawaii at Manoa2538 McCarthy MallEdmonson 216HonoluluHI 96822USA Barcelona Supercomputing Centre(BSC-CNS) Jordi Girona2908034 BarcelonaSpain Institute for Research in Biomedicine(IRB Barcelona) The Barcelona Institute of Science and TechnologyBaldiri Reixac1008028 BarcelonaSpain Catalan Institution for Research and Advanced Studies(ICREA) BarcelonaSpain MTA-EKE Lendület Environmental Microbiome Research Group Eszterházy Károly UniversityLeányka u.6.3300 EgerHungary Senate Department for the Environment Transport and Climate ProtectionBerlinGermany The Yeasts Foundation UtrechtThe Netherlands Department of Agriculture Food and Environmental SciencesUniversity of PerugiaPerugiaItaly Industrial Yeasts Collection DBVPG University of PerugiaPerugiaItaly College of Life Sciences Institute of Life Sciences and Green DevelopmentHebei UniversityBaoding 071002HebeiChina Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures BrunswickGermany

Yeasts,usually defined as unicellular fungi,occur in various fungal ***,they are not a taxonomic unit,but rather represent a fungal lifestyle shared by several unrelated *** the discovery of new yeast species occurs at an increasing speed,at the current rate it will likely take hundreds of years,if ever,before they will all be *** parts of the earth,including many threatened habitats,remain unsampled for yeasts and many others are only superficially *** habitats,such as glaciers,are home to a specific community of cold-adapted yeasts,and,hence,there is some urgency to study such environments at locations where they might disappear soon due to anthropogenic climate *** same is true for yeast communities in various natural forests that are impacted by deforestation and forest *** countries of the so-called Global South have not been sampled for yeasts,despite their economic ***,extensive research activity in Asia,especially China,has yielded many taxonomic *** genomics stud-ies have demonstrated the presence of yeast species with a hybrid origin,many of them isolated from clinical or industrial ***-metabarcoding studies have demonstrated the prevalence,and in some cases dominance,of yeast species in soils and marine waters worldwide,including some surprising distributions,such as the unexpected and likely common presence of Malassezia yeasts in marine habitats.

关键词： Yeasts Ascomycota Basidiomycota Diversity CBD Nagoya protocol Soil DNA-metabarcoding Marine Malassezia Cold environments China

The evolving species concepts used for yeasts:from phenotypes and genomes to speciation networks

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Fungal Diversity 2021年第4期109卷 27-55页

作者： teun boekhout M.Catherine Aime Dominik Begerow Toni Gabaldón Joseph Heitman Martin Kemler Kantarawee Khayhan Marc-AndréLachance Edward J.Louis Sheng Sun Duong Vu Andrey Yurkov Westerdijk Fungal Biodiversity Institute UtrechtThe Netherlands Institute of Biodiversity and Ecosystem Dynamics(IBED) University of AmsterdamAmsterdamThe Netherlands Dept Botany and Plant Pathology College of AgriculturePurdue UniversityWest LafayetteIN 47907USA Evolution of Plants and Fungi Ruhr-University Bochum44801 BochumGermany Barcelona Supercomputing Centre(BSC-CNS) Jordi Girona2908034 BarcelonaSpain Institute for Research in Biomedicine(IRB Barcelona) The Barcelona Institute of Science and TechnologyBaldiri Reixac1008028 BarcelonaSpain Catalan Institution for Research and Advanced Studies(ICREA) BarcelonaSpain Department of Molecular Genetics and Microbiology Duke University Medical CenterDurhamNC 27710USA Department of Microbiology and Parasitology Faculty of Medical SciencesUniversity of PhayaoPhayao 56000Thailand Department of Biology University of Western OntarioLondonON N6A 5B7Canada Department of Genetics and Genome Biology Genetic Architecture of Complex TraitsUniversity of LeicesterLeicester LE17RHUK German Collection of Microorganisms and Cell Cultures Leibniz Institute DSMZBrunswickGermany

Here we review how evolving species concepts have been applied to understand yeast ***,a phenotypic species concept was utilized taking into consideration morphological aspects of colonies and cells,and growth *** the biological species concept was added,which applied data from mating *** measurements of DNA similarity between isolates were an early measure that became more broadly applied with the advent of sequencing technology,leading to a sequence-based species concept using comparisons of parts of the ribosomal *** present phylogenetic species concepts that employ sequence data of rDNA and other genes are universally applied in fungal taxonomy,including yeasts,because various studies revealed a relatively good correlation between the biological species concept and sequence *** application of genome information is becoming increasingly common,and we strongly recommend the use of complete,rather than draft genomes to improve our understanding of species and their genome and genetic *** genomes allow in-depth comparisons on the evolvability of genomes and,consequently,of the species to which they *** seems a relatively common phenomenon and has been observed in all major fungal lineages that contain *** that hybrids may greatly differ in their post-hybridization *** in-depth studies,initially using some model species or complexes may shift the traditional species concept as isolated clusters of genetically compatible isolates to a cohesive speciation network in which such clusters are interconnected by genetic processes,such as hybridization.

关键词： Fungi Species concepts Comparative genomics Hybrids Nomenclature Taxonomy

黑粉菌亚门(Ustilaginomycotina)无性型真菌研究

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黑粉菌亚门(Ustilaginomycotina)无性型真菌研究

An online resource for marine fungi

中国菌物学会第六届会员代表大会（2014年学术年会）暨贵州省食用菌产业发展高峰论坛

作者：王启明白逢彦 teun boekhout 中国科学院微生物研究所

黑粉菌亚门(Ustilaginomycotina)除了包括植物病原真菌黑粉菌(smuts)夕卜,还包括一些无性型酵母菌和类酵母菌’例如Acaromyces spp.,Pseiidozyma spp.,Meira spp"Tilletiopsis spp.和Malassezia spp.o该类酵母在工农业生产、人类健康、资源与环境保护等领域中具有重要的应用价值。近期国外学者根据多基因序列分析和形态学数据对黑粉菌亚门进行了重新修订,但是仍然有些问题没有解决,例如和属在该亚门内的系统学位置任然不清楚。我们用18SrDNA,26S rDNADl/D2,ITS,RPB1,RPB2和EFl-a六个基因片段对以上两个属的系统学地位进行了研究。研究结果表明Maktssezict和MonilieHa位于黑粉菌亚门内,它们是黑粉菌纲(Ustilaginomycetes)和外担子菌纲(Exobasidiomycetes)的姊妹群。Moniliellomycetes class nov.和Malasseziomycetes class nov.两个新纲被创建,分别来容纳和Malassezia两个类群。

关键词：黑粉菌亚门系统进化 Moniliellomycetes Malasseziomycetes

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Fungal Diversity 2019年第3期96卷 347-433页

作者： E.B.Gareth Jones Ka-Lai Pang Mohamed A.Abdel-Wahab Bettina Scholz Kevin D.Hyde teun boekhout Rainer Ebel Mostafa E.Rateb Linda Henderson Jariya Sakayaroj Satinee Suetrong Monika C.Dayarathne Vinit Kumar Seshagiri Raghukumar K.R.Sridhar Ali H.A.Bahkali Frank H.Gleason Chada Norphanphoun Deptartment of Botany and Microbiology College of ScienceKing Saud UniversityP.O Box 2455Riyadh 11451Kingdom of Saudi Arabia Hampshire UK Institute of Marine Biology and Centre of Excellence for the Oceans Taiwan Ocean University2 Pei-Ning RoadKeelung 20224TaiwanChina Department of Botany and Microbiology Faculty of ScienceSohag UniversitySohag 82524Egypt BioPol ehf Marine BiotechnologyEinbuastig 2545 SkagastrondIceland Center of Excellence in Fungal Diversity Mae Fah Luang University 333 M.1 ThasudMuang Chiang RaiChiang Rai 57100Thailand Westerdijk Fungal Biodiversity Institute Uppsalalaan 8UtrechtThe Netherlands Institute of Biodiversity and Ecological Dynamics(IBED) University of AmsterdamAmsterdamThe Netherlands Department of Chemistry Marine Biodiscovery CentreUniversity of AberdeenAberdeen AB243UEUK School of Computing Engineering&Physical SciencesUniversity of the West of ScotlandPaisley PA12BEUK School of Life and Environmental Sciences University of SydneyMacleay Building A12SydneyNSW 2006Australia School of Science Walailak University222 ThaiburiThasala DistrictNakhon Si Thammarat 80161Thailand Fungal Biodiversity Laboratory(BFBD) National Center for Genetic Engineering and Biotechnology(BIOTEC)113 Thailand Science ParkPhaholyothin RoadKhlong NuengKhlong LuangPathum Thani 12120Thailand Tamra' 313(Plot No.162)Vainguinnim ValleyDona PaulaGoa 403004India Department of Biosciences Mangalore UniversityMangaloreKarnatakaIndia School of Life and Environmental Sciences University of SydneySydneyNSW 2006Australia Department of Entomology and Plant Pathology Faculty of AgricultureChiang Mai UniversityHuay Keaw RoadSuthepMuang DistrictChiang Mai 50200Thailand

Index Fungorum,Species Fungorum and MycoBank are the key fungal nomenclature and taxonomic databases that can be sourced to find taxonomic details concerning fungi,while DNA sequence data can be sourced from the NCBI,EBI and UNITE *** and ecological data on freshwater fungi can be accessed on http://***/,while http://***/provides a comprehensive list of names of marine organisms,including information on their *** websites however have little information on marine fungi and their ecology,beside articles that deal with marine fungi,especially those published in the nineteenth and early twentieth centuries may not be accessible to those working in third world *** address this problem,a new website *** was set up and is introduced in this *** website provides a search facility to genera of marine fungi,full species descriptions,key to species and illustrations,an up to date classification of all recorded marine fungi which includes all fungal groups(Ascomycota,Basidiomycota,Blastocladiomycota,Chytridiomycota,Mucoromycota and fungus-like organisms ***),and listing recent ***,1257 species are listed in the marine fungi website(***),in 539 genera,74 orders,168 families,20 classes and five phyla,with new taxa continuing to be *** website has curators with specialist mycological expertise who help to provide update data on the classification of marine *** article also reviews knowledge of marine fungi covering a wide range of topics:their higher classification,ecology and world distribution,role in energy transfer in the oceans,origin and new chemical *** updated classification of marine fungi is also *** would like to invite all mycologists to contribute to this innovative website.

关键词： Fungal classification marine fungi website High-throughput sequencing techniques Fungal diversity Origin of marine fungi

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利用微卫星标记研究新生隐球菌分子流行病学

中国真菌学杂志 2011年第5期6卷 281-284页

作者：潘炜华廖万清温海赵瑾 Ferry Hagen teun boekhout 第二军医大学长征医院皮肤科上海市医学真菌分子生物学重点实验室上海200003 荷兰皇家科学院真菌多态性研究中心

目的研究国内隐球菌临床分离株的遗传多态性和分子流行病学。方法选择与新生隐球菌遗传相关的9个微卫星标记,分析这9个位点从1993～2009年国内分离到的新生隐球菌临床株遗传背景、来源及变异程度。结果 116株被研究的隐球菌临床分离株,... 详细信息

目的研究国内隐球菌临床分离株的遗传多态性和分子流行病学。方法选择与新生隐球菌遗传相关的9个微卫星标记,分析这9个位点从1993～2009年国内分离到的新生隐球菌临床株遗传背景、来源及变异程度。结果 116株被研究的隐球菌临床分离株,主要归属于3个微卫星复合物(MC2,MC3和MC12),其中大部分为MC2(103株)。8株菌株属于目前为止未被国内外认识的新复合物(MC12)。结论利用微卫星DNA多态性研究新生隐球菌分子流行病学有较大的应用价值。

关键词：新生隐球菌微卫星流行病学

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格特隐球菌感染病例临床特征分析

格特隐球菌感染病例临床特征分析

擔子菌酵母的多基因系統發育分析與分類系統更新

2012年中国菌物学会学术年会

作者：陈敏潘炜华邓淑文 teun boekhout 廖万清上海市医学真菌分子生物学重点实验室上海长征医院皮肤科

最近十年来,格特隐球菌因突然在地处温带的加拿大温哥华岛及美国部分地区引发人与动物感染的爆发性流行事件而广受国际医学真菌学界的关注。目前,关于我国格特隐球菌感染临床特征的研究匮乏,但已有的分子流行病学研究显示我国患者感染... 详细信息

最近十年来,格特隐球菌因突然在地处温带的加拿大温哥华岛及美国部分地区引发人与动物感染的爆发性流行事件而广受国际医学真菌学界的关注。目前,关于我国格特隐球菌感染临床特征的研究匮乏,但已有的分子流行病学研究显示我国患者感染的格特隐球菌除1株VGIIb型菌株外,全部为VGI型菌株。我们对收集自我院及上海华山医院(1993年-2011年)共147株隐球菌临床分离株进行了CGB培养基与ITS序列分析,共发现了11株格特隐球菌,以此这11例患者病例进行了回顾性分析,发现我国格特隐球菌感染主要分布在江苏、上海、浙江、福建、广东、海南等热带、亚热带地区,HIV均为为阴性,平均颅内压达(349+47 mmHO),较新生隐球菌感染组(300+56 mmHO)偏高(P=0.007),神经系统尤其是视神经系统后遗症较多见(54.5%,n=11),CD4T计数与易感性尚需进一步研究。

关键词：格特隐球菌感染中国

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擔子菌酵母的多基因系統發育分析與分類系統更新