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Signal Transduction and Targeted Therapy 2024年第9期9卷 3550-3551页

作者： Shuaibing Zhang Pierre Stallforth Department of Paleobiotechnology Leibniz Institute for Natural Product Research and Infection Biology–Hans Knöll InstituteBeutenbergstraße 11aD-07745 JenaGermany institute for Organic Chemistry and Macromolecular Chemistry Friedrich Schiller University JenaHumboldtstraße 10D-07743 JenaGermany Cluster of Excellence Balance of the Microverse Friedrich Schiller University JenaFürstengraben 1D-07743 JenaGermany

A recent study by Granton et *** Cell investigates the role of exopolysaccharide(EPS)in Pseudomonas aeruginosa’s biofilm formation,immune evasion,and lung–brain signaling during pneumonia.1 This research significantly advances our understanding of how ***’s biofilms influence disease symptoms and suggests potential therapeutic strategies targeting the lung–brain axis to improve clinical outcomes in pneumonia *** before the COVID-19 pandemic,social distancing from individuals suffering from severe respiratory tract infections has been an effective strategy to limit the transmission of airborne diseases.2 In their work,Granton et *** the specific mechanisms by which the bacterium *** triggers symptoms of sickness in individuals suffering from *** these mechanisms is vital as they directly influence the spread of the *** strains causing less noticeable sickness may result in symptoms undetected by others,eventually enhancing the transmission of the pathogen.

关键词： pneumonia al. lung

Antibiotic Treatment Drives the Diversification of the Human Gut Resistome

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Genomics, Proteomics & Bioinformatics 2019年第1期17卷 39-51页

作者： Jun Li Elizabeth A.Rettedal Eric van der Helm Mostafa Ellabaan Gianni Panagiotou Morten O.A.Sommer Department of Infectious Diseases and Public Health Colleague of Veterinary Medicine and Life Sciences City Univerity of Hong Kong School of Data Science City Univerity of Hong Kong Novo Nordisk Foundation Center for Biosustainability Systems biology and Bioinformatics Unit Leibniz Institute for Natural Product Research and Infection Biology – Hans Kn?ll Institute Systems biology and Bioinformatics Group School of Biological Sciences Faculty of Sciences The University of Hong Kong Department of Microbiology Li Ka Shing Faculty of Medicine The University of Hong Kong

Despite the documented antibiotic-induced disruption of the gut microbiota, the impact of antibiotic intake on strain-level dynamics, evolution of resistance genes, and factors influencing resistance dissemination potential remains poorly understood. To address this gap we analyzed public metagenomic datasets from 24 antibiotic treated subjects and controls, combined with an in-depth prospective functional study with two subjects investigating the bacterial community dynamics based on cultivation-dependent and independent methods. We observed that shortterm antibiotic treatment shifted and diversified the resistome composition, increased the average copy number of antibiotic resistance genes, and altered the dominant strain genotypes in an individual-specific manner. More than 30% of the resistance genes underwent strong differentiation at the single nucleotide level during antibiotic treatment. We found that the increased potential for horizontal gene transfer, due to antibiotic administration, was ～3-fold stronger in the differentiated resistance genes than the non-differentiated ones. This study highlights how antibiotic treatment has individualized impacts on the resistome and strain level composition, and drives the adaptive evolution of the gut microbiota.

关键词： Antibiotics Resistome Gut microbiome Strain Evolution Horizontal gene transfer

Diversity and delimitation of Rhizopus microsporus

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Fungal Diversity 2014年第1期64卷 145-163页

作者： Somayeh Dolatabadi Grit Walther A.H.G.Gerrits van den Ende G.S.de Hoog CBS-knAW Fungal Biodiversity Centre P.O.Box 851673508 AD UtrechtThe Netherlands institute for Biodiversity and Ecosystem Dynamics University of AmsterdamAmsterdamThe Netherlands institute of Microbiology Department of Microbiology and Molecular BiologyUniversity of JenaJenaGermany leibniz-institute for natural product research and infection biology-hans-knöll-institute Jena Microbial Resource CollectionJenaGermany research Center for Medical Mycology Peking University Health Science CenterBeijingChina Sun Yat-sen Memorial Hospital Sun Yat-sen UniversityGuangzhouChina Shanghai institute of Medical Mycology Changzheng HospitalSecond Military Medical UniversityShanghaiChina

Rhizopus microsporus has been used for centuries in the production of oriental fermented foods,but the species is also known as a toxin producer and from severe human *** study the diversity and species delimitation of Rhizopus microsporus,48 isolates from the reference collection of the CBS-knAW Fungal Biodiversity Centre,comprising nine environmental,ten clinical,and 23 foodborne strains,in addition to six strains from unknown sources and representing all existing varieties of the species,were *** diversity was based on the internal transcribed spacer(ITS),and on a part of the actin(ACT)and translation elongation factor 1-α(TEF)*** in physiological properties were assessed including temperature *** morphology was studied,mating type tests were performed,and MALDI-ToF profiles were *** and food-associated strains as well as members of different varieties mated successfully and consequently they belong to a single biological *** differences did not match with any other parameter *** on these results the varieties of Rhizopus microsporus are reduced to synonyms.

关键词： Rhizopus microsporus Phylogeny Taxonomy Physiology MALDI-ToF Mating type Foodborne fungi Medical mycology Sporulation

European Species of Hebeloma Section Theobromina

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Fungal Diversity 2013年第1期58卷 103-126页

作者： Ursula Eberhardt Henry J.Beker Jan Vesterholt Karolina Dukik Grit Walther Jordi Vila Samantha Fernández Brime CBS-knAW Fungal Biodiversity Centre Centraalbureau voor SchimmelculturesUppsalalaan 83584 CT UtrechtNetherlands Rue Père de Deken 19 1040 BruxellesBelgium natural History Museum of Denmark Gothersgade 1301123 Copenhagen K.Denmark Microbial Resource Collection Leibniz Institute for Natural Product Research and Infection Biology-Hans Knöll Institute and Institute of MicrobiologyDepartment of Microbiology and Molecular BiologyUniversity of JenaBeutenbergstraße 11a07745 JenaGermany Department Biologia Vegetal(Botànica) Fac.BiologiaUniversitat de BarcelonaDiagonal 64508028 BarcelonaSpain

This paper addresses section Theobromina within the genus Hebeloma(Agaricales).We recognise seven European species within this section,three of which are described as new:Hebeloma alboerumpens,*** and *** first two of these species appear to be ectomycorrhizal with Cistaceae:Cistus and *** parvicystidiatum is more likely to be in mycorrhizal association with Quercus *** also provide a key to the European species within *** and an updated key of known Hebeloma associates of *** analyses based on multiple loci further illustrate the distinctness of the newly described taxa and provide molecular evidence,supporting the morphological evidence,for the relationship that exists among species of this *** ITS is the only one from the sequenced loci that,alongside with morphology,distinguishes among all of the species of *** section gains most of its molecular support from the MCM7 locus,followed by RPB2.

关键词： Host specificity Fungi Hebeloma plesiocistum Hebeloma theobrominum Hebeloma vesterholtii DNA barcode

Corrigendum to“Antibiotic Treatment Drives the Diversification of the Human Gut Resistome”[Genomics Proteomics Bioinformatics 17(1)(2019)39-51]

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Genomics, Proteomics & Bioinformatics 2020年第5期18卷 624-625页

作者： Jun Li Elizabeth A.Rettedal Eric van der Helm Mostafa Ellabaan Gianni Panagiotou Morten O.A.Sommer Department of Infectious Diseases and Public Health Colleague of Veterinary Medicine and Life SciencesCity University of Hong KongHong Kong Special Administrative RegionChina School of Data Science City University of Hong KongHong Kong Special Administrative RegionChina Novo Nordisk Foundation Center for Biosustainability DK-2900 HørsholmDenmark Systems biology and Bioinformatics Unit Leibniz Institute for Natural Product Research and Infection Biology-Hans Knöll Institute07745 JenaGermany Systems biology and Bioinformatics Group School of Biological SciencesFaculty of SciencesThe University of Hong KongHong Kong Special Administrative RegionChina Department of Microbiology Li Ka Shing Faculty of MedicineThe University of Hong KongHong Kong Special Administrative RegionChina

The editors regret there was an error in“Shotgun metagenome library construction and sequencing”section.“The raw sequences can be found in BGID(CRA000815)”should be corrected to“The raw metagenome sequencing data have been deposited in the Genome Sequence Archive at Beijing institute of Genomics,Chinese Academy of Sciences(GSA:CRA000815),and are publicly accessible at https://***/gsa/”.The correct section is shown *** editors would like to apologize for any inconvenience caused.

关键词： (1) Antibiotic Genome

Recent advances in diabetes and microbiota

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Science Bulletin 2022年第17期67卷 1720-1723页

作者： Weiping Jia Gianni Panagiotou Shanghai Key Laboratory of Diabetes Mellitus Department of Endocrinology and MetabolismShanghai Diabetes InstituteShanghai Clinical Center for DiabetesShanghai Jiao Tong University Affiliated Sixth People’s HospitalShanghai 200233China Systems biology and Bioinformatics Unit Leibniz Institute for Natural Product Research and Infection Biology-Hans Knöll InstituteJena 07745Germany State Key Laboratory of Pharmaceutical Biotechnology The University of Hong KongHong KongChina Department of Medicine The University of Hong KongHong KongChina

Diabetes mellitus is a global public health problem that causes great economic and social *** pathogenesis is complex and ***,with considerable attention paid to the interaction between gut microbiota and host,gut mic... 详细信息

关键词： diseases pathogenesis Diabetes

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补体系统及其糖基化

生物化学与生物物理进展 2017年第10期44卷 888-897页

作者：赵菲党刘毅赵璇李可 leibniz institute for natural product research and infection biology 西安交通大学第二附属医院 Department of Molecular Biotechnology Ghent University 商洛市中心医院检验科

补体系统是固有免疫系统的重要组成部分,同时也是连接固有免疫和适应性免疫系统的重要桥梁.补体系统由30多种蛋白质组成,且其中绝大多数都经过糖基化修饰.近年来对补体系统的研究,不断揭示出补体系统在抗击病原微生物入侵和维持有机体... 详细信息

补体系统是固有免疫系统的重要组成部分,同时也是连接固有免疫和适应性免疫系统的重要桥梁.补体系统由30多种蛋白质组成,且其中绝大多数都经过糖基化修饰.近年来对补体系统的研究,不断揭示出补体系统在抗击病原微生物入侵和维持有机体生理稳态过程中发挥着重要作用.然而补体系统需要严格的调控,不论是激活不足、抑或是过度激活都可能引起疾病的发生.本文概述了近年来对于补体系统的激活、调控和功能研究的最新进展,并首次从糖生物学角度对补体系统蛋白质组分的糖链结构及糖链对相应蛋白质功能的影响进行了综述和小结.

关键词：补体糖基化糖蛋白调控 H因子

Proteomic Differences between Azole-Susceptible and -Resistant <i>Aspergillus fumigatus</i>Strains

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Advances in Microbiology 2018年第1期8卷 77-99页

作者： Edith Vermeulen Sebastien Carpentier Olaf kniemeyer Machteld Sillen Johan Maertens Katrien Lagrou Department of Microbiology and Immunology University of Leuven Leuven Belgium Facility for Systems biology Based Mass Spectrometry University of Leuven Leuven Belgium leibniz institute for natural product research and infection biology—hans knoell institute (HKI) Molecular and Applied Microbiology Jena Germany Department of Microbiology and Immunology and UZ Leuven Clinical Department of Hematology University of Leuven Leuven Belgium Department of Microbiology and Immunology and UZ Leuven Clinical Department of Laboratory Medicine and National Reference Center for Mycosis University of Leuven Leuven Belgium

Background: Azole-resistance is increasingly reported in Aspergillus fumigatus infections. It remains challenging to rapidly assess antifungal susceptibility to initiate the appropriate therapy. The aim of this study was to map the proteomic differences of azole-susceptible and -resistant strains. Methods: Proteomic studies were performed with ultra-performance liquid chromatography tandem mass-spectrometry (UPLC-MS/MS). Results: UPLC-MS/MS detected 7899 peptides, of which 1792 peptides had a significantly different abundance (p A. fumigatus resistance. Conclusions: UPLC-MS/MS provided proof-of-concept that the proteome of azole-resistant A. fumigatus is diverse enough to serve as a diagnostic tool.

关键词： Aspergillus fumigatus Triazole Resistance Proteomic Mass Spectrometry

One stop shop:backbones trees for important phytopathogenic genera:Ⅰ(2014)

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Fungal Diversity 2014年第4期67卷 21-125页

作者： Kevin D.Hyde R.Henrik Nilsson S.Aisyah Alias Hiran A.Ariyawansa Jaime E.Blair Lei Cai Arthur W.A.M.de Cock Asha J.Dissanayake Sally L.Glockling Ishani D.Goonasekara Michal Gorczak Matthias Hahn Ruvishika S.Jayawardena Jan A.L.van Kan Matthew H.Laurence C.AndréLévesque Xinghong Li Jian-Kui Liu Sajeewa S.N.Maharachchikumbura Dimuthu S.Manamgoda Frank N.Martin Eric H.C.McKenzie Alistair R.McTaggart Peter E.Mortimer Prakash V.R.Nair Julia Pawlowska Tara L.Rintoul Roger G.Shivas Christoffel F.J.Spies Brett A.Summerell Paul W.J.Taylor Razak B.Terhem Dhanushka Udayanga Niloofar Vaghefi Grit Walther Mateusz Wilk Marta Wrzosek Jian-Chu Xu JiYe Yan Nan Zhou Key Laboratory for Plant Diversity and Biogeography of East Asia Kunming Institute of BotanyChinese Academy of SciencesKunming 650201People’s Republic of China World Agroforestry Centre East Asia NodeHeilongtanKunming 650201People’s Republic of China institute of Excellence in Fungal research and School of ScienceMae Fah Luang UniversityChiang Rai 57100Thailand Botany and Microbiology Department College of ScienceKing Saud UniversityRiyadh 1145Saudi Arabia Department of Biological and Environmental Sciences University of GothenburgBox 46140530 GöteborgSweden institute of Ocean and Earth Sciences(IOES) C308Institute of Postgraduate Studies BuildingUniversity of Malaya50603 Kuala LumpurMalaysia Department of biology Franklin&Marshall CollegeLancasterPAUSA State Key Laboratory of Mycology Institute of MicrobiologyChinese Academy of SciencesBeijing 100101 People’s Republic of China CBS-knAW Fungal Biodiversity Centre Uppsalalaan 83584CT UtrechtThe Netherlands Beijing Academy of Agriculture and Forestry Sciences Institute of Plant and Environment ProtectionNo.9 of ShuguanghuayuanzhongluHaidian DistrictBeijing 100097People’s Republic of China 135 Brodrick Road Eastbourne BN229RAEast SussexUK Department of Plant Systematics and Geography Faculty of BiologyUniversity of WarsawAl.Ujazdowskie 400-478WarsawPoland Department of biology TU KaiserslauternErwin-Schrodinger-StraBe67663 KaiserslauternGermany Laboratory of Phytopathology Wageningen UniversityDroevendaalsesteeg 16708 PB WageningenThe Netherlands Royal Botanic Gardens and Domain Trust Mrs Macquaries RdSydneyNew South Wales 2000Australia Agriculture and Agri-Food Canada Central Experimental FarmOttawaONCanada United States Department of Agriculture Agriculture Research ServiceSalinasCAUSA Landcare research Private Bag92170 AucklandNew Zealand Department of Agriculture Fisheries and ForestryEcosciences PrecinctDutton ParkQueensland 4102Australia Faculty of Veterinary and Agricultural Sciences The University of

Many fungi are pathogenic on plants and cause significant damage in agriculture and *** are also part of the natural ecosystem and may play a role in regulating plant numbers/*** identification and analysis of plant pathogenic fungi,while important,is often hampered by the scarcity of discriminatory taxonomic characters and the endophytic or inconspicuous nature of these ***(DNA sequence)data for plant pathogenic fungi have emerged as key information for diagnostic and classification studies,although hampered in part by non-standard laboratory practices and analytical *** facilitate current and future research,this study provides phylogenetic synopses for 25 groups of plant pathogenic fungi in the Ascomycota,Basidiomycota,Mucormycotina(Fungi),and Oomycota,using recent molecular data,up-to-date names,and the latest taxonomic *** laboratory protocols together with advice on their application,as well as general observations,are also *** hope to maintain updated backbone trees of these fungal lineages over time and to publish them jointly as new data *** of plant pathogenic fungi not covered by the present study are invited to join this future ***,Botryosphaeriaceae,Botryosphaeria,Botrytis,Choanephora,Colletotrichum,Curvularia,Diaporthe,Diplodia,Dothiorella,Fusarium,Gilbertella,Lasiodiplodia,Mucor,Neofusicoccum,Pestalotiopsis,Phyllosticta,Phytophthora,Puccinia,Pyrenophora,Pythium,Rhizopus,Stagonosporopsis,Ustilago and Verticillium are dealt with in this paper.

关键词： Ascomycota Basidiomycota Endophytes Mucormycotina Molecular identification Oomycota Plant pathogens Protozoa

Early-diverging fungal phyla:taxonomy,species concept,ecology,distribution,anthropogenic impact,and novel phylogenetic proposals

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Fungal Diversity 2021年第4期109卷 59-98页

作者： Kerstin Voigt Timothy Y.James Paul M.Kirk AndréL.C.M.de A.Santiago Bruce Waldman Gareth W.Griffith Minjie Fu Renate Radek Jürgen F.H.Strassert Christian Wurzbacher Gustavo Henrique Jerônimo David R.Simmons Kensuke Seto Eleni Gentekaki Vedprakash G.Hurdeal Kevin D.Hyde Thuong T.T.Nguyen Hyang Burm Lee Jena Microbial Resource Collection Leibniz Institute for Natural Product Research and Infection BiologyAdolf-Reichwein-Straße 2307745 JenaGermany institute of Microbiology Faculty of Biological SciencesFriedrich Schiller University JenaNeugasse 2507743 JenaGermany Department of Ecology and Evolutionary biology University of MichiganAnn ArborMI 48109USA Biodiversity Informatics and Spatial Analysis Jodrell LaboratoryRoyal Botanic Gardens KewSurrey TW93DSUK Department of Mycology Federal University of PernambucoAv.Da Engenharias/nRecifePE 50740-4600Brazil School of Biological Sciences Seoul National UniversitySeoul 08826South Korea Department of Integrative biology Oklahoma State UniversityStillwaterOK 74078USA institute of Biological Environmentaland Rural Sciences(IBERS)Aberystwyth UniversityAberystwyth SY233DDWalesUK institute of biology/Zoology Evolutionary BiologyFreie Universität Berlin14195 BerlinGermany leibniz institute of Freshwater Ecology and Inland Fisheries Ecosystem Research12587 BerlinGermany Department of Civil Geo and Environmental EngineeringTechnical University of MunichGarchingGermany School of Science Mae Fah Luang UniversityChiang Rai 57100Thailand Center of Excellence in Fungal research Mae Fah Luang UniversityChiang Rai 57100Thailand Environmental Microbiology Lab Department of Agricultural Biological ChemistryCollege of Agriculture&Life SciencesChonnam National UniversityGwangju 61186South Korea

The increasing number of new fungal species described from all over the world along with the use of genetics to define taxa,has dramatically changed the classification system of early-diverging fungi over the past several *** number of phyla established for non-Dikarya fungi has increased from 2 to ***,to date,both the classification and phylogeny of the basal fungi are still *** this article,we review the recent taxonomy of the basal fungi and re-evaluate the relationships among early-diverging lineages of fungal *** also provide information on the ecology and distribu-tion in Mucoromycota and highlight the impact of chytrids on amphibian *** concepts in Chytridiomycota,Aphelidiomycota,Rozellomycota,Neocallimastigomycota are discussed in this *** preserve the current application of the genus Nephridiophaga(Chytridiomycota:Nephridiophagales),a new type species,Nephridiophaga blattellae,is proposed.

关键词： Early-diverging fungi Evolution Nuclear large subunit(LSU/28S) Nuclear small subunit(SSU/18S) Molecular phylogeny