Trimethylamine-N-oxide(TMAO)has emerged as a potential biomarker for atherosclerosis and the development of cardiovascular diseases(CVDs).Although several clinical studies have shown striking associations of TMAO leve...Trimethylamine-N-oxide(TMAO)has emerged as a potential biomarker for atherosclerosis and the development of cardiovascular diseases(CVDs).Although several clinical studies have shown striking associations of TMAO levels with atherosclerosis and CVDs,TMAO determinations are not clinical routine yet.The current methodology relies on isotope-labeled internal standards,which adds to pre-analytical complexity and costs for the quantification of TMAO and its precursors carnitine,betaine or choline.Here,we report a liquid chromatography-tandem mass spectrometry based method that is fast(throughput up to 240 samples/day),consumes low sample volumes(e.g.,from a finger prick),and does not require isotope-labeled standards.We circumvented the analytical problem posed by the presence of endogenous TMAO and its precursors in human plasma by using an artificial plasma matrix for calibration.We cross-validated the results obtained using an artificial matrix with those using mouse plasma matrix and demonstrated that TMAO,carnitine,betaine and choline were accurately quantified in’reallife’human plasma samples from healthy volunteers,obtained either from a finger prick or from venous puncture.Additionally,we assessed the stability of samples stored at-20℃and room temperature.Whereas all metabolites were stable at-20℃,increasing concentrations of choline were determined when stored at room temperature.Our method will facilitate the establishment of TMAO as a routine clinical biomarker in hematology in order to assess the risk for CVDs development,or to monitor disease progression and intervention effects.展开更多
Within the field of regenerative medicine, the liver is of major interest for adoption of regenerative strategies due to its well-known and unique regenerative capacity. Whereas therapeutic strategies such as liver re...Within the field of regenerative medicine, the liver is of major interest for adoption of regenerative strategies due to its well-known and unique regenerative capacity. Whereas therapeutic strategies such as liver resection and orthotopic liver transplantation(OLT) can be considered standards of care for the treatment of a variety of liver diseases, the concept of liver cell transplantation(LCTx) still awaits clinical breakthrough. Success of LCTx is hampered by insufficient engraftment/long-term acceptance of cellular allografts mainly due to rejection of transplanted cells. This is in contrast to the results achieved for OLT where longterm graft survival is observed on a regular basis and, hence, the liver has been deemed an immuneprivileged organ. Immune responses induced by isolated hepatocytes apparently differ considerably from those observed following transplantation of solid organs and, thus, LCTx requires refined immunological strategies to improve its clinical outcome. In addition, clinical usage of LCTx but also related basic research efforts are hindered by the limited availability of high quality liver cells, strongly emphasizing the need for alternative cell sources. This review focuses on the various immunological aspects of LCTx summarizing data available not only for hepatocyte transplantation but also for transplantation of non-parenchymal liver cells and liver stem cells.展开更多
Since late 2022, the share of infections caused by the SARS-CoV2 lineage XBB.1.5 has gradually increased in the United States,resulting in XBB.1.5 becoming the dominating SARS-CoV-2lineage in the United States and a s...Since late 2022, the share of infections caused by the SARS-CoV2 lineage XBB.1.5 has gradually increased in the United States,resulting in XBB.1.5 becoming the dominating SARS-CoV-2lineage in the United States and a similar trend is likely to soontake place also in European countries. However, information onthe virological properties of XBB.1.5 is scarce. Here, weconducted an initial virological assessment of the SARS-CoV-2XBB.1.5 lineage.展开更多
Despite previous circulation of the highly transmissible and antibody evasive BA.2.75, BQ.1, XBB.1 and XBB.1.5 lineages, the share of infections caused by the SARS-CoV-2 lineage XBB.1.16 has gradually increased in Ind...Despite previous circulation of the highly transmissible and antibody evasive BA.2.75, BQ.1, XBB.1 and XBB.1.5 lineages, the share of infections caused by the SARS-CoV-2 lineage XBB.1.16 has gradually increased in India in early 2023, resulting in XBB.1.16 being the dominating SARS-CoV-2 lineage in India today. Since a similar trend may also take place in other countries and information on the biological properties of the XBB.1.16 lineage is scarce, we conducted a rapid assessment of the SARS-CoV-2 XBB.1.16 lineage with respect to its ability to enter cells and evade neutralisation by antibodies.展开更多
This study deals with an extensive evaluation focusing on phylogenetic and chemotaxonomic infrageneric relationships of the genus Annulohypoxylon(Xylariaceae,Ascomycota),whose species are ubiquitously associated with ...This study deals with an extensive evaluation focusing on phylogenetic and chemotaxonomic infrageneric relationships of the genus Annulohypoxylon(Xylariaceae,Ascomycota),whose species are ubiquitously associated with seed plants as endophytes and saprotrophs in all forested areas of the world.Using evidence from phylogenetic,chemotaxonomic and morphological data,various varieties within the genus are raised to species level,leading to the new combinations for A.areolatum(:A.bovei var.microsporum),A.macrosporum(:A.leptascum var.macrosporum),and A.microdiscum(:A.moriforme var.microdiscum).Annulohypoxylon substygium nom.nov.is applied for A.stygium var.annulatumand the four new tropical and subtropical species A.massivum,A.violaceopigmentum,A.viridistratum and A.yungensis are introduced.Furthermore,A.leucadendri is excluded from the genus as its morphological characters disagree with the generic concept,the recently erected A.palmicola is synonymized with A.leptascum and A.austrobahiense has been reassigned to the genus Hypoxylon.In addition,the key taxa A.annulatum and A.truncatum have been reinvestigated and epitypes have been defined.For the first time,a dichotomous key to the genus is provided.A phylogenetic b-tubulin tree in conjunction with stromatal HPLC profiles clearly shows that Annulohypoxylon comprises two distinct lineages.The A.cohaerens/multiforme group might eventually warrant segregation into a new genus as further molecular data become available.展开更多
Seven new azaphilone pigments named lenormandins A–G were isolated from stromata(fruiting bodies)of the xylariaceous fungus,Hypoxylon lenormandii using preparative High Performance Liquid Chromatography(HPLC)and thei...Seven new azaphilone pigments named lenormandins A–G were isolated from stromata(fruiting bodies)of the xylariaceous fungus,Hypoxylon lenormandii using preparative High Performance Liquid Chromatography(HPLC)and their structures were elucidated by NMR spectroscopy,high resolution mass spectrometry and other spectral methods.Their occurrence in herbarium specimens(including various type materials collected in the 19th and early 20th century)and several fresh collections was studied by analytical HPLC with diode array and mass spectrometric detection(HPLC-DAD/MS),revealing that this group of pigments is specific for Hypoxylon lenormandii from various geographic regions and otherwise only occurs in closely related taxa,i.e.H.sublenormandii and an undescribed fungus from Sri Lanka,for which we propose the name H.jaklitschii.The status of the new species was established by using molecular phylogenetic data based on ITS and partial beta-tubulin sequences,and by detailed morphological studies.展开更多
Fungi have been often neglected,despite the fact that they provided penicillin,lovastatin and many other important medicines.They are an understudied,but essential,fascinating and biotechnologically useful group of or...Fungi have been often neglected,despite the fact that they provided penicillin,lovastatin and many other important medicines.They are an understudied,but essential,fascinating and biotechnologically useful group of organisms.The study of fungi in northern Thailand has been carried out by us since 2005.These studies have been diverse,ranging from ecological aspects,phylogenetics with the incorportation of molecular dating,taxonomy(including morphology and chemotaxonomy)among a myriad of microfungi,to growing novel mushrooms,and DNA-based identification of plant pathogens.In this paper,advances in understanding the biodiversity of fungi in the region are discussed and compared with those further afield.Many new species have been inventoried for the region,but many unknown species remain to be described and/or catalogued.For example,in the edible genus Agaricus,over 35 new species have been introduced from northern Thailand,and numerous other taxa await description.In this relatively well known genus,93%of species novelty is apparent.In the microfungi,which are relatively poorly studied,the percentage of novel species is,surprisingly,generally not as high(55–96%).As well as Thai fungi,fungi on several hosts from Europe have been also investigated.Even with the well studied European microfungi an astounding percentage of new taxa(32–76%)have been discovered.The work is just a beginning and it will be a daunting task to document this astonishingly high apparent novelty among fungi.展开更多
Neutralizing antibodies targeting the receptor-binding domain(RBD)of the SARS-CoV-2 spike(S)block severe acute respiratory syndrome coronavirus 2(SARS-CoV-2)entry into cells via surface-expressed angiotensin-convertin...Neutralizing antibodies targeting the receptor-binding domain(RBD)of the SARS-CoV-2 spike(S)block severe acute respiratory syndrome coronavirus 2(SARS-CoV-2)entry into cells via surface-expressed angiotensin-converting enzyme 2(ACE2).We used a surrogate virus neutralization test(sVNT)and SARS-CoV-2 S protein-pseudotyped vesicular stomatitis virus(VSV)vector-based neutralization assay(pVNT)to assess the degree to which serum antibodies from coronavirus disease 2019(COVID-19)convalescent patients interfere with the binding of SARS-CoV-2 S to ACE2.Both tests revealed neutralizing anti-SARS-CoV-2 S antibodies in the sera of ~90% of mildly and 100% of severely affected COVID-19 convalescent patients.Importantly,sVNT and pVNT results correlated strongly with each other and to the levels of anti-SARS-CoV-2 S1 IgG and IgA antibodies.Moreover,levels of neutralizing antibodies correlated with the duration and severity of clinical symptoms but not with patient age.Compared to pVNT,sVNT is less sophisticated and does not require any biosafety labs.Since this assay is also much faster and cheaper,sVNT will not only be important for evaluating the prevalence of neutralizing antibodies in a population but also for identifying promising plasma donors for successful passive antibody therapy.展开更多
Fungal stromata were recently discovered in association with charcoal and burnt soil aggregates during an archaeological survey in the Chaˆtillon-sur-Seine forest massif.The wood and soil in the samples were dated to ...Fungal stromata were recently discovered in association with charcoal and burnt soil aggregates during an archaeological survey in the Chaˆtillon-sur-Seine forest massif.The wood and soil in the samples were dated to the medieval period(between 738 and 1411 AD).Light microscopy and scanning electron microscopy revealed that a few of the stromatal fragments still contained ascospores.Their macromorphological characters were described and secondary metabolite profiles were generated using high performance liquid chromatography with diode array and mass spectrometric detection(HPLC–DAD/MS).The combination of these two data lines then allowed species identification.Most of the fragments were assigned to Hypoxylon fragiforme,the type species of the Hypoxylaceae(Xylariales).Two further species whose stromata grew on the fossil charcoal could be tentatively identified as Jackrogersella cohaerens and(more tentatively)as Hypoxylon vogesiacum.These three species are still commonly encountered in the forests of Central Europe today.Furthermore,the HPLC-HRMS data of H.fragiforme suggested the presence of unknown azaphilone dimers and of further new pigments.These archaeological compounds were compared to fresh stromata of H.fragiforme collected in Germany and subjected to the same analytical protocol.While the major components in both samples were identified as the known mitorubrin type azaphilones and orsellinic acid,the chemical structures of seven novel complex azaphilone pigments,for which we propose the trivial names rutilins C-D and fragirubrins A-E,were elucidated using spectral methods(NMR and CD spectroscopy,high resolution mass spectrometry).It appears that these pigments had indeed persisted for millennia in the fossil stromata.展开更多
The Hypoxylaceae(Xylariales,Ascomycota)is a diverse family of mainly saprotrophic fungi,which commonly occur in angiosperm-dominated forests around the world.Despite their importance in forest and plant ecology as wel...The Hypoxylaceae(Xylariales,Ascomycota)is a diverse family of mainly saprotrophic fungi,which commonly occur in angiosperm-dominated forests around the world.Despite their importance in forest and plant ecology as well as a prolific source of secondary metabolites and enzymes,genome sequences of related taxa are scarce and usually derived from envi-ronmental isolates.To address this lack of knowledge thirteen taxonomically well-defined representatives of the family and one member of the closely related Xylariaceae were genome sequenced using combinations of Illumina and Oxford nanopore technologies or PacBio sequencing.The workflow leads to high quality draft genome sequences with an average N50 of 3.0 Mbp.A backbone phylogenomic tree was calculated based on the amino acid sequences of 4912 core genes reflecting the current accepted taxonomic concept of the Hypoxylaceae.A Percentage of Conserved Proteins(POCP)analysis revealed that 70%of the proteins are conserved within the family,a value with potential application for the definition of family boundaries within the order Xylariales.Also,Hypomontagnella spongiphila is proposed as a new marine derived lineage of Hypom.monticulosa based on in-depth genomic comparison and morphological differences of the cultures.The results showed that both species share 95%of their genes corresponding to more than 700 strain-specific proteins.This difference is not reflected by standard taxonomic assessments(morphology of sexual and asexual morph,chemotaxonomy,phylogeny),preventing species delimitation based on traditional concepts.Genetic changes are likely to be the result of environmental adaptations and selective pressure,the driving force of speciation.These data provide an important starting point for the establishment of a stable phylogeny of the Xylariales;they enable studies on evolution,ecological behavior and biosynthesis of natural products;and they significantly advance the taxonomy of fungi.展开更多
In a recent study in Science,Bowen et al.1 report that mutations in Omicron sublineage’s spike protein enhance ACE2 binding,impair fusogenicity,and dampen the neutralizing activity of antibodies after vaccination or ...In a recent study in Science,Bowen et al.1 report that mutations in Omicron sublineage’s spike protein enhance ACE2 binding,impair fusogenicity,and dampen the neutralizing activity of antibodies after vaccination or infection.The data describe how Omicron and especially the BA.5 variant evade neutralizing antibody responses and argue for using mRNA booster vaccination to increase immunity.展开更多
This article provides morphological descriptions and illustrations of microfungi associated with the invasive weed,Chro-molaena odorata,which were mainly collected in northern Thailand.Seventy-seven taxa distributed i...This article provides morphological descriptions and illustrations of microfungi associated with the invasive weed,Chro-molaena odorata,which were mainly collected in northern Thailand.Seventy-seven taxa distributed in ten orders,23 families(of which Neomassarinaceae is new),12 new genera(Chromolaenicola,Chromolaenomyces,Longiappendispora,Pseudocapulatispora,Murichromolaenicola,Neoophiobolus,Paraleptospora,Pseudoroussoella,Pseudostaurosphaeria,Pseudothyridariella,Setoarthopyrenia,Xenoroussoella),47 new species(Aplosporella chromolaenae,Arthrinium chromolae-nae,Chromolaenicola chiangraiensis,C.lampangensis,C.nanensis,C.thailandensis,Chromolaenomyces appendiculatus,Diaporthe chromolaenae,Didymella chromolaenae,Dyfrolomyces chromolaenae,Leptospora chromolaenae,L.phraeana,Longiappendispora chromolaenae,Memnoniella chromolaenae,Montagnula chiangraiensis,M.chromolaenae,M.chromo-laenicola,M.thailandica,Murichromolaenicola chiangraiensis,M.chromolaenae,Muyocopron chromolaenae,M.chromo-laenicola,Neomassarina chromolaenae,Neoophiobolus chromolaenae,Neopyrenochaeta chiangraiensis,N.chromolaenae,N.thailandica,N.triseptatispora,Nigrograna chromolaenae,Nothophoma chromolaenae,Paraleptospora chromolaenae,P.chromolaenicola,Patellaria chromolaenae,Pseudocapulatispora longiappendiculata,Pseudoroussoella chromolaenae,Pseudostaurosphaeria chromolaenae,P.chromolaenicola,Pseudothyridariella chromolaenae,Pyrenochaetopsis chromolae-nae,Rhytidhysteron chromolaenae,Setoarthopyrenia chromolaenae,Sphaeropsis chromolaenicola,Tremateia chiangraiensis,T.chromolaenae,T.thailandensis,Xenoroussoella triseptata,Yunnanensis chromolaenae),12 new host records,three new taxonomic combinations(Chromolaenicola siamensis,Pseudoroussoella elaeicola,Pseudothyridariella mahakashae),and two reference specimens(Torula chromolaenae,T.fici)are described and illustrated.Unlike some other hosts,e.g.bamboo(Poaceae)and Pandanaceae,the dominant group of fungi on Siam weed were Dothideomycetes.Only 15 species previously recorded from northern Thailand were found in this study.Most of the taxa are likely to have jumped hosts from surrounding plants and are unlikely to be a specialist to Siam weed.Most fungal families found on Siam weed had divergence estimates with stem ages in the Cretaceous,which coincided with the expected origin of the host family(Asteraceae).This further indicates that the species have jumped hosts,as it is unlikely that the taxa on the alien Siam weed came from the Americas with its host.They may,however,have jumped from other Asteraceae hosts.In a preliminary screening 40(65%)of the 62 species tested showed antimicrobial activity and thus,the fungi associated with C.odorata may be promising sources of novel bioactive compound discovery.We provide a checklist of fungi associated with C.odorata based on the USDA Systematic Mycology and Microbiology Laboratory(SMML)database,relevant literature and our study.In total,130 taxa(116 identified and 14 unidentified species)are distributed in 20 orders,48 families and 85 genera.Pseudocercospora is the most commonly encountered genus on Siam weed.展开更多
An account is provided of the world’s ten most feared fungi.Within areas of interest,we have organized the entries in the order of concern.We put four human pathogens first as this is of concern to most people.This i...An account is provided of the world’s ten most feared fungi.Within areas of interest,we have organized the entries in the order of concern.We put four human pathogens first as this is of concern to most people.This is followed by fungi producing mycotoxins that are highly harmful for humans;Aspergillus flavus,the main producer of aflatoxins,was used as an example.Problems due to indoor air fungi may also directly affect our health and we use Stachybotrys chartarum as an example.Not everyone collects and eats edible mushrooms.However,fatalities caused by mushroom intoxications often make news headlines and therefore we include one of the most poisonous of all mushrooms,Amanita phalloides,as an example.We then move on to the fungi that damage our dwellings causing serious anxiety by rotting our timber structures and flooring.Serpula lacrymans,which causes dry rot is an excellent example.The next example serves to represent all plant and forest pathogens.Here we chose Austropuccinia psidii as it is causing devastating effects in Australia and will probably do likewise in New Zealand.Finally,we chose an important amphibian pathogen which is causing serious declines in the numbers of frogs and other amphibians worldwide.Although we target the top ten most feared fungi,numerous others are causing serious concern to human health,plant production,forestry,other animals and our factories and dwellings.By highlighting ten feared fungi as an example,we aim to promote public awareness of the cost and importance of fungi.展开更多
Biodiversity loss from disturbances caused by human activities means that species are disappearing at an ever increasing rate.The high number of species that have yet to be described have generated extreme crisis to t...Biodiversity loss from disturbances caused by human activities means that species are disappearing at an ever increasing rate.The high number of species that have yet to be described have generated extreme crisis to the taxonomist.Therefore,more than in any other era,effective ways to discover and delimitate species are needed.This paper reviews the historically fore-most approaches used to delimit species in Ascomycota,the most speciose phylum of Fungi.These include morphological,biological,and phylogenetic species concepts.We argue that a single property to delineate species boundaries has various defects and each species concept comes with its own advantages and disadvantages.Recently the rate of species discovery has increased because of the advancement of phylogenetic approaches.However,traditional phylogenetic methods with few gene regions lack species-level resolution,and do not allow unambiguous conclusions.We detail the processes that affect gene tree heterogeneity,which acts as barriers to delimiting species boundaries in classical low-rank phylogenies.So far,limited insights were given to the DNA-based methodologies to establish well-supported boundaries among fungal species.In addition to reviewing concepts and methodologies used to delimit species,we present a case study.We applied differ-ent species delimitation methods to understand species boundaries in the plant pathogenic and cryptic genus Phyllosticta(Dothideomycetes,Botryosphaeriales).Several DNA-based methods over-split the taxa while in some methods several taxa fall into a single species.These problems can be resolved by using multiple loci and coalescence-based methods.Further,we discuss integrative approaches that are crucial for understanding species boundaries within Ascomycota and provide several examples for ideal and pragmatic approaches of species delimitation.展开更多
Sordariomycetes is one of the largest classes of Ascomycota that comprises a highly diverse range of fungi characterized mainly by perithecial ascomata and inoperculate unitunicate asci.The class includes many importa...Sordariomycetes is one of the largest classes of Ascomycota that comprises a highly diverse range of fungi characterized mainly by perithecial ascomata and inoperculate unitunicate asci.The class includes many important plant pathogens,as well as endophytes,saprobes,epiphytes,coprophilous and fungicolous,lichenized or lichenicolous taxa.They occur in terrestrial,freshwater and marine habitats worldwide.This paper reviews the 107 families of the class Sordariomycetes and provides a modified backbone tree based on phylogenetic analysis of four combined loci,with a maximum five representative taxa from each family,where available.This paper brings together for the first time,since Barrs’1990 Prodromus,descriptions,notes on the history,and plates or illustrations of type or representative taxa of each family,a list of accepted genera,including asexual genera and a key to these taxa of Sordariomycetes.Delineation of taxa is supported where possible by molecular data.The outline is based on literature to the end of 2015 and the Sordariomycetes now comprises six subclasses,32 orders,105 families and 1331 genera.The family Obryzaceae and Pleurotremataceae are excluded from the class.展开更多
Since the beginning of the COVID-19 pandemic,divergent variants of concern(VoCs)of SARS-CoV-2 have evolved and become the most prevalent SARS-CoV-2 variants in distinct locations at different times.Currently,the Delta...Since the beginning of the COVID-19 pandemic,divergent variants of concern(VoCs)of SARS-CoV-2 have evolved and become the most prevalent SARS-CoV-2 variants in distinct locations at different times.Currently,the Delta variant(B.1.617.2)dominates infection events in large parts of the world.Immunization campaigns,however,still use SARS-CoV-2 vaccines based on the spike(S)protein of the original Wuhan virus.展开更多
The SARS-CoV-2 spike(S)protein engages ACE2 for cell entry,and the S protein/ACE2 interface is an important target for neutralizing antibodies.In the course of the COVID-19 pandemic,SARS-CoV-2 variants have emerged th...The SARS-CoV-2 spike(S)protein engages ACE2 for cell entry,and the S protein/ACE2 interface is an important target for neutralizing antibodies.In the course of the COVID-19 pandemic,SARS-CoV-2 variants have emerged that harbor mutations in the S protein,which confer neutralization resistance and allow viral spread in immunologically nonnaive populations.The most prominent example is the highly mutated Omicron variant,which infects convalescent or vaccinated individuals with unprecedented efficiency[1,2].展开更多
This special issue is dedicated to Emeritus Prof.Dr.Kevin D.Hyde in recognition of his contributions to mycology on the occasion of his 65th birthday.He was born on 3rd May 1955.As a young man,his curiosity about anim...This special issue is dedicated to Emeritus Prof.Dr.Kevin D.Hyde in recognition of his contributions to mycology on the occasion of his 65th birthday.He was born on 3rd May 1955.As a young man,his curiosity about animals and plants around his locality and gathering and identifying mushrooms shaped his later career as a great mycologist in the present era.With an early desire to pursue biology,he obtained B.Sc.in Zoology in 1979 from University of Wales,Cardiff,UK,his B.Sc.research project being on duck nematodes.He became interested in the degradation of materials by microorganisms,and enrolled on a taught M.Sc.in the Biodeterioration of Materials at University of Portsmouth,UK,in 1979.As part of the course,he undertook a dissertation in entomology.At Portsmouth,Kevin first met Professor Gareth Jones,who shaped much of his career thereafter.With his passion for teaching and sharing knowledge with others,Kevin took a postgradu-ate certificate in education(PGCE)at Bristol University。展开更多
Fungi are an understudied,biotechnologically valuable group of organisms.Due to the immense range of habitats that fungi inhabit,and the consequent need to compete against a diverse array of other fungi,bacteria,and a...Fungi are an understudied,biotechnologically valuable group of organisms.Due to the immense range of habitats that fungi inhabit,and the consequent need to compete against a diverse array of other fungi,bacteria,and animals,fungi have developed numerous survival mechanisms.The unique attributes of fungi thus herald great promise for their application in biotechnology and industry.Moreover,fungi can be grown with relative ease,making production at scale viable.The search for fungal biodiversity,and the construction of a living fungi collection,both have incredible economic potential in locating organisms with novel industrial uses that will lead to novel products.This manuscript reviews fifty ways in which fungi can potentially be utilized as biotechnology.We provide notes and examples for each potential exploitation and give examples from our own work and the work of other notable researchers.We also provide a flow chart that can be used to convince funding bodies of the importance of fungi for biotechnological research and as potential products.Fungi have provided the world with penicillin,lovastatin,and other globally significant medicines,and they remain an untapped resource with enormous industrial potential.展开更多
Notes on 113 fungal taxa are compiled in this paper,including 11 new genera,89 new species,one new subspecies,three new combinations and seven reference specimens.Awide geographic and taxonomic range of fungal taxa ar...Notes on 113 fungal taxa are compiled in this paper,including 11 new genera,89 new species,one new subspecies,three new combinations and seven reference specimens.Awide geographic and taxonomic range of fungal taxa are detailed.In the Ascomycota the new genera Angustospora(Testudinaceae),Camporesia(Xylariaceae),Clematidis,Crassiparies(Pleosporales genera incertae sedis),Farasanispora,Longiostiolum(Pleosporales genera incertae sedis),Multilocularia(Parabambusicolaceae),Neophaeocryptopus(Dothideaceae),Parameliola(Pleosporales genera incertae sedis),and Towyspora(Lentitheciaceae)are introduced.Newly introduced species are Angustospora nilensis,Aniptodera aquibella,Annulohypoxylon albidiscum,Astrocystis thailandica,Camporesia sambuci,Clematidis italica,Colletotrichum menispermi,C.quinquefoliae,Comoclathris pimpinellae,Crassiparies quadrisporus,Cytospora salicicola,Diatrype thailandica,Dothiorella rhamni,Durotheca macrostroma,Farasanispora avicenniae,Halorosellinia rhizophorae,Humicola koreana,Hypoxylon lilloi,Kirschsteiniothelia tectonae,Lindgomyces okinawaensis,Longiostiolum tectonae,Lophiostoma pseudoarmatisporum,Moelleriella phukhiaoensis,M.pongdueatensis,Mucoharknessia anthoxanthi,Multilocularia bambusae,Multiseptospora thysanolaenae,Neophaeocryptopus cytisi,Ocellularia arachchigei,O.ratnapurensis,Ochronectria thailandica,Ophiocordyceps karstii,Parameliola acaciae,P.dimocarpi,Parastagonospora cumpignensis,Pseudodidymosphaeria phlei,Polyplosphaeria thailandica,Pseudolachnella brevifusiformis,Psiloglonium macrosporum,Rhabdodiscus albodenticulatus,Rosellinia chiangmaiensis,Saccothecium rubi,Seimatosporium pseudocornii,S.pseudorosae,Sigarispora ononidis and Towyspora aestuari.New combinations are provided for Eutiarosporella dactylidis(sexual morph described and illus trated)and Pseudocamarosporium pini.Descriptions,illustrations and/or reference specimens are designated for Aposphaeria corallinolutea,Cryptovalsa ampelina,Dothiorella vidmadera,Ophiocordyceps formosana,Petrakia echinata,Phragmoporthe conformis and Pseudocamarosporium pini.The new species of Basidiomycota are Agaricus coccyginus,A.luteofibrillosus,Amanita atrobrunnea,A.digitosa,A.gleocystidiosa,A.pyriformis,A.strobilipes,Bondarzewia tibetica,Cortinarius albosericeus,C.badioflavidus,C.dentigratus,C.duboisensis,C.fragrantissimus,C.roseobasilis,C.vinaceobrunneus,C.vinaceogrisescens,C.wahkiacus,Cyanoboletus hymenoglutinosus,Fomitiporia atlantica,F.subtilissima,Ganoderma wuzhishanensis,Inonotus shoreicola,Lactifluus armeniacus,L.ramipilosus,Leccinum indoaurantiacum,Musumecia alpina,M.sardoa,Russula amethystina subp.tengii and R.wangii are introduced.Descriptions,illustrations,notes and/or reference specimens are designated for Clarkeinda trachodes,Dentocorticium ussuricum,Galzinia longibasidia,Lentinus stuppeus and Leptocorticium tenellum.The other new genera,species new combinations are Anaeromyces robustus,Neocallimastix californiae and Piromyces finnis from Neocallimastigomycota,Phytophthora estuarina,P.rhizophorae,Salispina,S.intermedia,S.lobata and S.spinosa from Oomycota,and Absidia stercoraria,Gongronella orasabula,Mortierella calciphila,Mucor caatinguensis,M.koreanus,M.merdicola and Rhizopus koreanus in Zygomycota.展开更多
基金support from the German Centre for Infection Research(DZIF,TTU 09.710)supported by the Helmholtz Association’s Initiative on Aging and Metabolic Programming(AMPro)。
文摘Trimethylamine-N-oxide(TMAO)has emerged as a potential biomarker for atherosclerosis and the development of cardiovascular diseases(CVDs).Although several clinical studies have shown striking associations of TMAO levels with atherosclerosis and CVDs,TMAO determinations are not clinical routine yet.The current methodology relies on isotope-labeled internal standards,which adds to pre-analytical complexity and costs for the quantification of TMAO and its precursors carnitine,betaine or choline.Here,we report a liquid chromatography-tandem mass spectrometry based method that is fast(throughput up to 240 samples/day),consumes low sample volumes(e.g.,from a finger prick),and does not require isotope-labeled standards.We circumvented the analytical problem posed by the presence of endogenous TMAO and its precursors in human plasma by using an artificial plasma matrix for calibration.We cross-validated the results obtained using an artificial matrix with those using mouse plasma matrix and demonstrated that TMAO,carnitine,betaine and choline were accurately quantified in’reallife’human plasma samples from healthy volunteers,obtained either from a finger prick or from venous puncture.Additionally,we assessed the stability of samples stored at-20℃and room temperature.Whereas all metabolites were stable at-20℃,increasing concentrations of choline were determined when stored at room temperature.Our method will facilitate the establishment of TMAO as a routine clinical biomarker in hematology in order to assess the risk for CVDs development,or to monitor disease progression and intervention effects.
基金Supported by Grants of the German Research Foundation(DFG,SFB 738,projects B3,C11)BMBF 01EO1302
文摘Within the field of regenerative medicine, the liver is of major interest for adoption of regenerative strategies due to its well-known and unique regenerative capacity. Whereas therapeutic strategies such as liver resection and orthotopic liver transplantation(OLT) can be considered standards of care for the treatment of a variety of liver diseases, the concept of liver cell transplantation(LCTx) still awaits clinical breakthrough. Success of LCTx is hampered by insufficient engraftment/long-term acceptance of cellular allografts mainly due to rejection of transplanted cells. This is in contrast to the results achieved for OLT where longterm graft survival is observed on a regular basis and, hence, the liver has been deemed an immuneprivileged organ. Immune responses induced by isolated hepatocytes apparently differ considerably from those observed following transplantation of solid organs and, thus, LCTx requires refined immunological strategies to improve its clinical outcome. In addition, clinical usage of LCTx but also related basic research efforts are hindered by the limited availability of high quality liver cells, strongly emphasizing the need for alternative cell sources. This review focuses on the various immunological aspects of LCTx summarizing data available not only for hepatocyte transplantation but also for transplantation of non-parenchymal liver cells and liver stem cells.
基金BMBF(01KI2006D,01KI20328A,01KX2021)the Ministry for Science and Culture of Lower Saxony(14-76103-184,COFONI Network,including projects 7FF22,6FF22,10FF22)+7 种基金EU(project UNDINE)and the German Research Foundation(DFGPO 716/11-1,PO 716/14-1)H.-M.J.received funding from BMBF(01KI2043,NaFoUniMedCovid19-COVIM:01KX2021)Bavarian State Ministry for Science and the Arts(Bayerisches Staatsministerium für Wissenschaft und Kunst)DFG through the research training groups RTG1660 and TRR130,the Bayerische Forschungsstiftung(Project CORAd)the Kastner Foundation.G.M.N.B.acknowledges funding by the German Center for Infection Research(Deutsches Zentrum für Infektionsforschung,DZIFgrant no 80018019238)a European Regional Development Fund(Defeat Corona,ZW7-8515131).
文摘Since late 2022, the share of infections caused by the SARS-CoV2 lineage XBB.1.5 has gradually increased in the United States,resulting in XBB.1.5 becoming the dominating SARS-CoV-2lineage in the United States and a similar trend is likely to soontake place also in European countries. However, information onthe virological properties of XBB.1.5 is scarce. Here, weconducted an initial virological assessment of the SARS-CoV-2XBB.1.5 lineage.
基金SP acknowledges funding by the EU project UNDINE(grant agreement number 101057100)the Ministry for Science and Culture of Lower Saxony(Niedersächsisches Ministerium für Wissenschaft und Kultur,14-76103-184,COFONI Network,including projects 7FF22,6FF22,10FF22)+4 种基金the German Research Foundation(Deutsche Forschungsgemeinschaft,DFG,PO 716/11-1)H-MJ received funding from BMBF(01KI2043,NaFoUniMedCovid19-COVIM:01KX2021)Bavarian State Ministry for Science and the Arts(Bayerisches Staatsministerium für Wissenschaft und Kunst)and DFG through the research training groups RTG1660 and TRR130,the Bayerische Forschungsstiftung(Project CORAd)and the Kastner Foundation.GMNB acknowledges funding by the German Centre for Infection Research(Deutsches Zentrum für Infektionsforschung,DZIFgrant no 80018019238)Further,GMNB and AD-J acknowledge funding by a European Regional Development Fund(Defeat Corona,ZW7-8515131).
文摘Despite previous circulation of the highly transmissible and antibody evasive BA.2.75, BQ.1, XBB.1 and XBB.1.5 lineages, the share of infections caused by the SARS-CoV-2 lineage XBB.1.16 has gradually increased in India in early 2023, resulting in XBB.1.16 being the dominating SARS-CoV-2 lineage in India today. Since a similar trend may also take place in other countries and information on the biological properties of the XBB.1.16 lineage is scarce, we conducted a rapid assessment of the SARS-CoV-2 XBB.1.16 lineage with respect to its ability to enter cells and evade neutralisation by antibodies.
文摘This study deals with an extensive evaluation focusing on phylogenetic and chemotaxonomic infrageneric relationships of the genus Annulohypoxylon(Xylariaceae,Ascomycota),whose species are ubiquitously associated with seed plants as endophytes and saprotrophs in all forested areas of the world.Using evidence from phylogenetic,chemotaxonomic and morphological data,various varieties within the genus are raised to species level,leading to the new combinations for A.areolatum(:A.bovei var.microsporum),A.macrosporum(:A.leptascum var.macrosporum),and A.microdiscum(:A.moriforme var.microdiscum).Annulohypoxylon substygium nom.nov.is applied for A.stygium var.annulatumand the four new tropical and subtropical species A.massivum,A.violaceopigmentum,A.viridistratum and A.yungensis are introduced.Furthermore,A.leucadendri is excluded from the genus as its morphological characters disagree with the generic concept,the recently erected A.palmicola is synonymized with A.leptascum and A.austrobahiense has been reassigned to the genus Hypoxylon.In addition,the key taxa A.annulatum and A.truncatum have been reinvestigated and epitypes have been defined.For the first time,a dichotomous key to the genus is provided.A phylogenetic b-tubulin tree in conjunction with stromatal HPLC profiles clearly shows that Annulohypoxylon comprises two distinct lineages.The A.cohaerens/multiforme group might eventually warrant segregation into a new genus as further molecular data become available.
文摘Seven new azaphilone pigments named lenormandins A–G were isolated from stromata(fruiting bodies)of the xylariaceous fungus,Hypoxylon lenormandii using preparative High Performance Liquid Chromatography(HPLC)and their structures were elucidated by NMR spectroscopy,high resolution mass spectrometry and other spectral methods.Their occurrence in herbarium specimens(including various type materials collected in the 19th and early 20th century)and several fresh collections was studied by analytical HPLC with diode array and mass spectrometric detection(HPLC-DAD/MS),revealing that this group of pigments is specific for Hypoxylon lenormandii from various geographic regions and otherwise only occurs in closely related taxa,i.e.H.sublenormandii and an undescribed fungus from Sri Lanka,for which we propose the name H.jaklitschii.The status of the new species was established by using molecular phylogenetic data based on ITS and partial beta-tubulin sequences,and by detailed morphological studies.
文摘Fungi have been often neglected,despite the fact that they provided penicillin,lovastatin and many other important medicines.They are an understudied,but essential,fascinating and biotechnologically useful group of organisms.The study of fungi in northern Thailand has been carried out by us since 2005.These studies have been diverse,ranging from ecological aspects,phylogenetics with the incorportation of molecular dating,taxonomy(including morphology and chemotaxonomy)among a myriad of microfungi,to growing novel mushrooms,and DNA-based identification of plant pathogens.In this paper,advances in understanding the biodiversity of fungi in the region are discussed and compared with those further afield.Many new species have been inventoried for the region,but many unknown species remain to be described and/or catalogued.For example,in the edible genus Agaricus,over 35 new species have been introduced from northern Thailand,and numerous other taxa await description.In this relatively well known genus,93%of species novelty is apparent.In the microfungi,which are relatively poorly studied,the percentage of novel species is,surprisingly,generally not as high(55–96%).As well as Thai fungi,fungi on several hosts from Europe have been also investigated.Even with the well studied European microfungi an astounding percentage of new taxa(32–76%)have been discovered.The work is just a beginning and it will be a daunting task to document this astonishingly high apparent novelty among fungi.
基金supported by Deutsche Forschungsgemeinschaft,DFG Excellence Strategy EXC 2155"RESIST"(Project ID39087428)by funds of the state of Lower Saxony(14-76103-184 CORONA-11/20)to RF and(1476103-184 CORONA-12/20)to TFSby funds of BM BF(RAPID consortium,01K11723D).
文摘Neutralizing antibodies targeting the receptor-binding domain(RBD)of the SARS-CoV-2 spike(S)block severe acute respiratory syndrome coronavirus 2(SARS-CoV-2)entry into cells via surface-expressed angiotensin-converting enzyme 2(ACE2).We used a surrogate virus neutralization test(sVNT)and SARS-CoV-2 S protein-pseudotyped vesicular stomatitis virus(VSV)vector-based neutralization assay(pVNT)to assess the degree to which serum antibodies from coronavirus disease 2019(COVID-19)convalescent patients interfere with the binding of SARS-CoV-2 S to ACE2.Both tests revealed neutralizing anti-SARS-CoV-2 S antibodies in the sera of ~90% of mildly and 100% of severely affected COVID-19 convalescent patients.Importantly,sVNT and pVNT results correlated strongly with each other and to the levels of anti-SARS-CoV-2 S1 IgG and IgA antibodies.Moreover,levels of neutralizing antibodies correlated with the duration and severity of clinical symptoms but not with patient age.Compared to pVNT,sVNT is less sophisticated and does not require any biosafety labs.Since this assay is also much faster and cheaper,sVNT will not only be important for evaluating the prevalence of neutralizing antibodies in a population but also for identifying promising plasma donors for successful passive antibody therapy.
文摘Fungal stromata were recently discovered in association with charcoal and burnt soil aggregates during an archaeological survey in the Chaˆtillon-sur-Seine forest massif.The wood and soil in the samples were dated to the medieval period(between 738 and 1411 AD).Light microscopy and scanning electron microscopy revealed that a few of the stromatal fragments still contained ascospores.Their macromorphological characters were described and secondary metabolite profiles were generated using high performance liquid chromatography with diode array and mass spectrometric detection(HPLC–DAD/MS).The combination of these two data lines then allowed species identification.Most of the fragments were assigned to Hypoxylon fragiforme,the type species of the Hypoxylaceae(Xylariales).Two further species whose stromata grew on the fossil charcoal could be tentatively identified as Jackrogersella cohaerens and(more tentatively)as Hypoxylon vogesiacum.These three species are still commonly encountered in the forests of Central Europe today.Furthermore,the HPLC-HRMS data of H.fragiforme suggested the presence of unknown azaphilone dimers and of further new pigments.These archaeological compounds were compared to fresh stromata of H.fragiforme collected in Germany and subjected to the same analytical protocol.While the major components in both samples were identified as the known mitorubrin type azaphilones and orsellinic acid,the chemical structures of seven novel complex azaphilone pigments,for which we propose the trivial names rutilins C-D and fragirubrins A-E,were elucidated using spectral methods(NMR and CD spectroscopy,high resolution mass spectrometry).It appears that these pigments had indeed persisted for millennia in the fossil stromata.
基金the DFG(Deutsche Forschungsgemeinschaft)priority program“Taxon-Omics:New Approaches for Discovering and Naming Biodiversity”(SPP 1991)The bioinformatics support of the BMBF-funded project‘Bielefeld-Gießen Center for Microbial Bioin-formaticsBiGi(Grant Number 031A533)’within the German Network for Bioinformatics Infrastructure(de.NBI)is gratefully acknowledged.
文摘The Hypoxylaceae(Xylariales,Ascomycota)is a diverse family of mainly saprotrophic fungi,which commonly occur in angiosperm-dominated forests around the world.Despite their importance in forest and plant ecology as well as a prolific source of secondary metabolites and enzymes,genome sequences of related taxa are scarce and usually derived from envi-ronmental isolates.To address this lack of knowledge thirteen taxonomically well-defined representatives of the family and one member of the closely related Xylariaceae were genome sequenced using combinations of Illumina and Oxford nanopore technologies or PacBio sequencing.The workflow leads to high quality draft genome sequences with an average N50 of 3.0 Mbp.A backbone phylogenomic tree was calculated based on the amino acid sequences of 4912 core genes reflecting the current accepted taxonomic concept of the Hypoxylaceae.A Percentage of Conserved Proteins(POCP)analysis revealed that 70%of the proteins are conserved within the family,a value with potential application for the definition of family boundaries within the order Xylariales.Also,Hypomontagnella spongiphila is proposed as a new marine derived lineage of Hypom.monticulosa based on in-depth genomic comparison and morphological differences of the cultures.The results showed that both species share 95%of their genes corresponding to more than 700 strain-specific proteins.This difference is not reflected by standard taxonomic assessments(morphology of sexual and asexual morph,chemotaxonomy,phylogeny),preventing species delimitation based on traditional concepts.Genetic changes are likely to be the result of environmental adaptations and selective pressure,the driving force of speciation.These data provide an important starting point for the establishment of a stable phylogeny of the Xylariales;they enable studies on evolution,ecological behavior and biosynthesis of natural products;and they significantly advance the taxonomy of fungi.
基金supported by the German Center for Infection Research(grant no.80018019238,TTU-HIV 04.821,and 04.820)a European Regional Development Fund(ZW7-8515131,ZW7-85151373).
文摘In a recent study in Science,Bowen et al.1 report that mutations in Omicron sublineage’s spike protein enhance ACE2 binding,impair fusogenicity,and dampen the neutralizing activity of antibodies after vaccination or infection.The data describe how Omicron and especially the BA.5 variant evade neutralizing antibody responses and argue for using mRNA booster vaccination to increase immunity.
基金Ausana Mapook was financially supported by Research and Researchers for Industry Program(RRI)PHD57I0012,Thailand and the German Academic Exchange Service(DAAD)for a joint TRF-DAAD(PPP 2017–2018)academic exchange grant to Kevin D.Hyde and Marc Stadler.Kevin D.Hyde thanks to the 2019 high-end foreign expert introduction plan to Kunming Institute of Botany(granted by the Ministry of Science and Technology of the People’s Republic of China,Grant Number G20190139006)Thailand Research grants entitled Biodiversity,phylogeny and role of fungal endophytes on above parts of Rhizophora apiculata and Nypa fruticans(Grant No:RSA5980068)+1 种基金the future of specialist fungi in a changing climate:baseline data for generalist and specialist fungi associated with ants,Rhododendron species and Dracaena species(Grant No:DBG6080013)Impact of climate change on fungal diversity and biogeography in the Greater Mekong Subregion(Grant No:RDG6130001).
文摘This article provides morphological descriptions and illustrations of microfungi associated with the invasive weed,Chro-molaena odorata,which were mainly collected in northern Thailand.Seventy-seven taxa distributed in ten orders,23 families(of which Neomassarinaceae is new),12 new genera(Chromolaenicola,Chromolaenomyces,Longiappendispora,Pseudocapulatispora,Murichromolaenicola,Neoophiobolus,Paraleptospora,Pseudoroussoella,Pseudostaurosphaeria,Pseudothyridariella,Setoarthopyrenia,Xenoroussoella),47 new species(Aplosporella chromolaenae,Arthrinium chromolae-nae,Chromolaenicola chiangraiensis,C.lampangensis,C.nanensis,C.thailandensis,Chromolaenomyces appendiculatus,Diaporthe chromolaenae,Didymella chromolaenae,Dyfrolomyces chromolaenae,Leptospora chromolaenae,L.phraeana,Longiappendispora chromolaenae,Memnoniella chromolaenae,Montagnula chiangraiensis,M.chromolaenae,M.chromo-laenicola,M.thailandica,Murichromolaenicola chiangraiensis,M.chromolaenae,Muyocopron chromolaenae,M.chromo-laenicola,Neomassarina chromolaenae,Neoophiobolus chromolaenae,Neopyrenochaeta chiangraiensis,N.chromolaenae,N.thailandica,N.triseptatispora,Nigrograna chromolaenae,Nothophoma chromolaenae,Paraleptospora chromolaenae,P.chromolaenicola,Patellaria chromolaenae,Pseudocapulatispora longiappendiculata,Pseudoroussoella chromolaenae,Pseudostaurosphaeria chromolaenae,P.chromolaenicola,Pseudothyridariella chromolaenae,Pyrenochaetopsis chromolae-nae,Rhytidhysteron chromolaenae,Setoarthopyrenia chromolaenae,Sphaeropsis chromolaenicola,Tremateia chiangraiensis,T.chromolaenae,T.thailandensis,Xenoroussoella triseptata,Yunnanensis chromolaenae),12 new host records,three new taxonomic combinations(Chromolaenicola siamensis,Pseudoroussoella elaeicola,Pseudothyridariella mahakashae),and two reference specimens(Torula chromolaenae,T.fici)are described and illustrated.Unlike some other hosts,e.g.bamboo(Poaceae)and Pandanaceae,the dominant group of fungi on Siam weed were Dothideomycetes.Only 15 species previously recorded from northern Thailand were found in this study.Most of the taxa are likely to have jumped hosts from surrounding plants and are unlikely to be a specialist to Siam weed.Most fungal families found on Siam weed had divergence estimates with stem ages in the Cretaceous,which coincided with the expected origin of the host family(Asteraceae).This further indicates that the species have jumped hosts,as it is unlikely that the taxa on the alien Siam weed came from the Americas with its host.They may,however,have jumped from other Asteraceae hosts.In a preliminary screening 40(65%)of the 62 species tested showed antimicrobial activity and thus,the fungi associated with C.odorata may be promising sources of novel bioactive compound discovery.We provide a checklist of fungi associated with C.odorata based on the USDA Systematic Mycology and Microbiology Laboratory(SMML)database,relevant literature and our study.In total,130 taxa(116 identified and 14 unidentified species)are distributed in 20 orders,48 families and 85 genera.Pseudocercospora is the most commonly encountered genus on Siam weed.
文摘An account is provided of the world’s ten most feared fungi.Within areas of interest,we have organized the entries in the order of concern.We put four human pathogens first as this is of concern to most people.This is followed by fungi producing mycotoxins that are highly harmful for humans;Aspergillus flavus,the main producer of aflatoxins,was used as an example.Problems due to indoor air fungi may also directly affect our health and we use Stachybotrys chartarum as an example.Not everyone collects and eats edible mushrooms.However,fatalities caused by mushroom intoxications often make news headlines and therefore we include one of the most poisonous of all mushrooms,Amanita phalloides,as an example.We then move on to the fungi that damage our dwellings causing serious anxiety by rotting our timber structures and flooring.Serpula lacrymans,which causes dry rot is an excellent example.The next example serves to represent all plant and forest pathogens.Here we chose Austropuccinia psidii as it is causing devastating effects in Australia and will probably do likewise in New Zealand.Finally,we chose an important amphibian pathogen which is causing serious declines in the numbers of frogs and other amphibians worldwide.Although we target the top ten most feared fungi,numerous others are causing serious concern to human health,plant production,forestry,other animals and our factories and dwellings.By highlighting ten feared fungi as an example,we aim to promote public awareness of the cost and importance of fungi.
基金Danny Haelewaters is supported by the Research Foundation-Flanders(junior postdoctoral fellowship 1206620N)Dhanushka Wanasinghe thanks the CAS President’s International Fellowship Initiative(PIFI)for funding his postdoctoral research(number 2021FYB0005)the Postdoctoral Fund from Human Resources and Social Security Bureau of Yunnan Province.
文摘Biodiversity loss from disturbances caused by human activities means that species are disappearing at an ever increasing rate.The high number of species that have yet to be described have generated extreme crisis to the taxonomist.Therefore,more than in any other era,effective ways to discover and delimitate species are needed.This paper reviews the historically fore-most approaches used to delimit species in Ascomycota,the most speciose phylum of Fungi.These include morphological,biological,and phylogenetic species concepts.We argue that a single property to delineate species boundaries has various defects and each species concept comes with its own advantages and disadvantages.Recently the rate of species discovery has increased because of the advancement of phylogenetic approaches.However,traditional phylogenetic methods with few gene regions lack species-level resolution,and do not allow unambiguous conclusions.We detail the processes that affect gene tree heterogeneity,which acts as barriers to delimiting species boundaries in classical low-rank phylogenies.So far,limited insights were given to the DNA-based methodologies to establish well-supported boundaries among fungal species.In addition to reviewing concepts and methodologies used to delimit species,we present a case study.We applied differ-ent species delimitation methods to understand species boundaries in the plant pathogenic and cryptic genus Phyllosticta(Dothideomycetes,Botryosphaeriales).Several DNA-based methods over-split the taxa while in some methods several taxa fall into a single species.These problems can be resolved by using multiple loci and coalescence-based methods.Further,we discuss integrative approaches that are crucial for understanding species boundaries within Ascomycota and provide several examples for ideal and pragmatic approaches of species delimitation.
基金the featured microbial resources and diversity investigation in Southwest Karst area(2014FY120100).The Biodiversity and Training Program(BRT R_251006,BRT R_351004,BRT_R352015)+3 种基金National Center for Genetic Engineering and Biotechnology(BIOTEC)Khlong Luang,Pathum Thani 12120,ThailandNational Natural Science Foundation of China(NSFC,No.30870009&31460011)the International Collaboration Plan of Guizhou Province(No.G[2012]7006)Ka-Lai Pang thanks the Ministry of Science and Technology,Taiwan(grant no.101-2621-B-019-001-MY3)for financial support.
文摘Sordariomycetes is one of the largest classes of Ascomycota that comprises a highly diverse range of fungi characterized mainly by perithecial ascomata and inoperculate unitunicate asci.The class includes many important plant pathogens,as well as endophytes,saprobes,epiphytes,coprophilous and fungicolous,lichenized or lichenicolous taxa.They occur in terrestrial,freshwater and marine habitats worldwide.This paper reviews the 107 families of the class Sordariomycetes and provides a modified backbone tree based on phylogenetic analysis of four combined loci,with a maximum five representative taxa from each family,where available.This paper brings together for the first time,since Barrs’1990 Prodromus,descriptions,notes on the history,and plates or illustrations of type or representative taxa of each family,a list of accepted genera,including asexual genera and a key to these taxa of Sordariomycetes.Delineation of taxa is supported where possible by molecular data.The outline is based on literature to the end of 2015 and the Sordariomycetes now comprises six subclasses,32 orders,105 families and 1331 genera.The family Obryzaceae and Pleurotremataceae are excluded from the class.
基金The study was approved by the Internal Review Board of Hannover Medical School(institutional review board no.8973_BO-K_2020,amendment Dec 2020)All participants gave written informed consent.Supported by the German Center for Infection Research TTU 01.938(Grant No.80018019238 to GMNB and RF)+4 种基金the German Center for Lung Research(Grant 82DZL002B1)Deutsche Forschungsgemeinschaft,(DFG,German Research Foundation)Excellence Strategy EXC 2155‘RESIST’(Project ID39087428 to RF)funds of the State of Lower Saxony(14-76103-184 CORONA-11/20 to RF,14-76103-184,MWK HZI COVID-19 to SP)funds of the BMBF(NaFoUniMedCovid19 FKZ:01KX2021,Projects B-FAST to RF,Projects 01KI2006D,01KI20328A,01KI20396,01KX2021 to SP)Deutsche Forschungsgemeinschaft,SFB 900/3(Projects B1,158989968 to RF,Projects PO 716/11-1,PO 716/14-1 to SP).
文摘Since the beginning of the COVID-19 pandemic,divergent variants of concern(VoCs)of SARS-CoV-2 have evolved and become the most prevalent SARS-CoV-2 variants in distinct locations at different times.Currently,the Delta variant(B.1.617.2)dominates infection events in large parts of the world.Immunization campaigns,however,still use SARS-CoV-2 vaccines based on the spike(S)protein of the original Wuhan virus.
基金SP acknowledges funding from BMBF(01KI2006D,01KI20328A,01KI20396,01KX2021)the Ministry for Science and Culture of Lower Saxony(14-76103-184,MWK HZI COVID-19)+2 种基金the German Research Foundation(DFG,PO 716/11-1,PO 716/14-1)MSW received unrestricted funding from Sartorius AG,Lung Research.H-MJ received funding from BMBF(01KI2043,NaFoUniMedCovid19-COVIM:01KX2021)Bavarian State Ministry for Science and the Arts and Deutsche Forschungsgemeinschaft(DFG)through the research training groups RTG1660 and TRR130.GMNB acknowledges funding from the German Center for Infection Research(grant no 80018019238).
文摘The SARS-CoV-2 spike(S)protein engages ACE2 for cell entry,and the S protein/ACE2 interface is an important target for neutralizing antibodies.In the course of the COVID-19 pandemic,SARS-CoV-2 variants have emerged that harbor mutations in the S protein,which confer neutralization resistance and allow viral spread in immunologically nonnaive populations.The most prominent example is the highly mutated Omicron variant,which infects convalescent or vaccinated individuals with unprecedented efficiency[1,2].
文摘This special issue is dedicated to Emeritus Prof.Dr.Kevin D.Hyde in recognition of his contributions to mycology on the occasion of his 65th birthday.He was born on 3rd May 1955.As a young man,his curiosity about animals and plants around his locality and gathering and identifying mushrooms shaped his later career as a great mycologist in the present era.With an early desire to pursue biology,he obtained B.Sc.in Zoology in 1979 from University of Wales,Cardiff,UK,his B.Sc.research project being on duck nematodes.He became interested in the degradation of materials by microorganisms,and enrolled on a taught M.Sc.in the Biodeterioration of Materials at University of Portsmouth,UK,in 1979.As part of the course,he undertook a dissertation in entomology.At Portsmouth,Kevin first met Professor Gareth Jones,who shaped much of his career thereafter.With his passion for teaching and sharing knowledge with others,Kevin took a postgradu-ate certificate in education(PGCE)at Bristol University。
基金supported by the Strategic Priority Research Program of the Chinese Academy of Sciences,Grant No.XDB31000000Naritsada Thongklang would like to thank Thailand research fund grants“Study of saprobic Agaricales in Thailand to find new industrial mushroom products”(Grant No.DBG6180015)+10 种基金Mae Fah Luang University grant“Optimal conditions for domestication and biological activities of selected species of Ganoderrma”(Grant No.621C1535)K.D.Hyde and Naritsada Thongklang would like to thanks to Thailand research fund grants“Domestication and bioactive evaluation of Thai Hymenopellis,Oudemansiella,Xerula and Volvariella species(basidiomycetes)”(Grant No.DBG6180033)K.D.Hyde thanks the financial support from the Visiting Professor grant at Chiang Mai University,Thailand and KIB.The authors acknowledge the contribution of M.M.Vasanthakumari,K.M.Manasa and P.Rajani,in various stages of preparation of the manuscript.Samantha C.Karunarathna thanks CAS President’s International Fellowship Initiative(PIFI)for funding his postdoctoral research(Number 2018PC0006)the National Science Foundation.Associate Professor R Jeewon thanks University of Mauritius for support.Binu C.Samarakoon offers her sincere gratitude to the“National Research Council of Thailand”(NRCT Grant No.256108A3070006)for the financial supportPeter E Mortimer would like to thank the National Science Foundation of China and the Chinese Academy of Sciences for financial support under the following Grants:41761144055,41771063,Y4ZK111B01M.Doilom would like to thank Chiang Mai University,the 5th batch of Postdoctoral Orientation Training Personnel in Yunnan Province and the 64th batch of China Postdoctoral Science Foundation.T.S.Suryanarayanan thanks the United States-India Educational Foundation(USIEF)New Delhi and the Fulbright Scholar Program(USA)for the award of a Fulbright-Nehru Senior Researcher grant to conduct research in the Department of Chemistry and Biochemistry,The Ohio State University,USA.Thanks to Research and Researchers for Industries Grant(PHD57I0015)for financial support to Boontiya Chuankid.Birthe Sandargo is grateful to the Deutsche Forschungsgemeinschaft(DFG)for a PhD grant.Clara Chepkirui is indebted to a PhD stipend from the German Academic Exchange Service(DAAD)and the Kenya National Council for Science and Technology(NACOSTI)Kevin D Hyde would also like to thank the National Research Council of Thailand grants Thailands’Fungal Diversity,Solving Problems and Creating Biotechnological Products(Grant No.61201321016)This work is partly supported by the Department of Biotechnology,Government of India,New Delhi(Chemical Ecology of the North East Region(NER)of India:A collaborative programme Linking NER and Bangalore ResearchersDBT-NER/Agri/24/2013)and Indian Council of Agricultural Research(ICAR-CAAST-Project F.No./NAHEP/CAAST/2018-19)Government of India,New Delhi.
文摘Fungi are an understudied,biotechnologically valuable group of organisms.Due to the immense range of habitats that fungi inhabit,and the consequent need to compete against a diverse array of other fungi,bacteria,and animals,fungi have developed numerous survival mechanisms.The unique attributes of fungi thus herald great promise for their application in biotechnology and industry.Moreover,fungi can be grown with relative ease,making production at scale viable.The search for fungal biodiversity,and the construction of a living fungi collection,both have incredible economic potential in locating organisms with novel industrial uses that will lead to novel products.This manuscript reviews fifty ways in which fungi can potentially be utilized as biotechnology.We provide notes and examples for each potential exploitation and give examples from our own work and the work of other notable researchers.We also provide a flow chart that can be used to convince funding bodies of the importance of fungi for biotechnological research and as potential products.Fungi have provided the world with penicillin,lovastatin,and other globally significant medicines,and they remain an untapped resource with enormous industrial potential.
基金the National Natural Science Foundation of China(No.30770013,No.31500013,No.31000013,No.31360014,No.31470152)the Special Program of Basic Science of the Ministry of Science and Technology(No.2012FY111600)the Technology of and International Cooperation Program of the Ministry of Science and Technology(No.2009DFA31160)of the People’s Republic of China,and the opening funding of State key Laboratory of Mycology,Institute of Microbiology,Chinese Academy of Sciences for funding。
文摘Notes on 113 fungal taxa are compiled in this paper,including 11 new genera,89 new species,one new subspecies,three new combinations and seven reference specimens.Awide geographic and taxonomic range of fungal taxa are detailed.In the Ascomycota the new genera Angustospora(Testudinaceae),Camporesia(Xylariaceae),Clematidis,Crassiparies(Pleosporales genera incertae sedis),Farasanispora,Longiostiolum(Pleosporales genera incertae sedis),Multilocularia(Parabambusicolaceae),Neophaeocryptopus(Dothideaceae),Parameliola(Pleosporales genera incertae sedis),and Towyspora(Lentitheciaceae)are introduced.Newly introduced species are Angustospora nilensis,Aniptodera aquibella,Annulohypoxylon albidiscum,Astrocystis thailandica,Camporesia sambuci,Clematidis italica,Colletotrichum menispermi,C.quinquefoliae,Comoclathris pimpinellae,Crassiparies quadrisporus,Cytospora salicicola,Diatrype thailandica,Dothiorella rhamni,Durotheca macrostroma,Farasanispora avicenniae,Halorosellinia rhizophorae,Humicola koreana,Hypoxylon lilloi,Kirschsteiniothelia tectonae,Lindgomyces okinawaensis,Longiostiolum tectonae,Lophiostoma pseudoarmatisporum,Moelleriella phukhiaoensis,M.pongdueatensis,Mucoharknessia anthoxanthi,Multilocularia bambusae,Multiseptospora thysanolaenae,Neophaeocryptopus cytisi,Ocellularia arachchigei,O.ratnapurensis,Ochronectria thailandica,Ophiocordyceps karstii,Parameliola acaciae,P.dimocarpi,Parastagonospora cumpignensis,Pseudodidymosphaeria phlei,Polyplosphaeria thailandica,Pseudolachnella brevifusiformis,Psiloglonium macrosporum,Rhabdodiscus albodenticulatus,Rosellinia chiangmaiensis,Saccothecium rubi,Seimatosporium pseudocornii,S.pseudorosae,Sigarispora ononidis and Towyspora aestuari.New combinations are provided for Eutiarosporella dactylidis(sexual morph described and illus trated)and Pseudocamarosporium pini.Descriptions,illustrations and/or reference specimens are designated for Aposphaeria corallinolutea,Cryptovalsa ampelina,Dothiorella vidmadera,Ophiocordyceps formosana,Petrakia echinata,Phragmoporthe conformis and Pseudocamarosporium pini.The new species of Basidiomycota are Agaricus coccyginus,A.luteofibrillosus,Amanita atrobrunnea,A.digitosa,A.gleocystidiosa,A.pyriformis,A.strobilipes,Bondarzewia tibetica,Cortinarius albosericeus,C.badioflavidus,C.dentigratus,C.duboisensis,C.fragrantissimus,C.roseobasilis,C.vinaceobrunneus,C.vinaceogrisescens,C.wahkiacus,Cyanoboletus hymenoglutinosus,Fomitiporia atlantica,F.subtilissima,Ganoderma wuzhishanensis,Inonotus shoreicola,Lactifluus armeniacus,L.ramipilosus,Leccinum indoaurantiacum,Musumecia alpina,M.sardoa,Russula amethystina subp.tengii and R.wangii are introduced.Descriptions,illustrations,notes and/or reference specimens are designated for Clarkeinda trachodes,Dentocorticium ussuricum,Galzinia longibasidia,Lentinus stuppeus and Leptocorticium tenellum.The other new genera,species new combinations are Anaeromyces robustus,Neocallimastix californiae and Piromyces finnis from Neocallimastigomycota,Phytophthora estuarina,P.rhizophorae,Salispina,S.intermedia,S.lobata and S.spinosa from Oomycota,and Absidia stercoraria,Gongronella orasabula,Mortierella calciphila,Mucor caatinguensis,M.koreanus,M.merdicola and Rhizopus koreanus in Zygomycota.