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Family matters inside the order Agaricales: systematic reorganization and classification of incertae sedis clitocyboid, pleurotoid and tricholomatoid taxa based on an updated 6-gene phylogeny Stud. Mycol. (IF 16.5) Pub Date : 2024-02-01 A. Vizzini, P. Alvarado, G. Consiglio, M. Marchetti, J. Xu
The phylogenetic position of several clitocyboid/pleurotoid/tricholomatoid genera previously considered incertae sedis is here resolved using an updated 6-gene dataset of Agaricales including newly sequenced lineages and more complete data from those already analyzed before. Results allowed to infer new phylogenetic relationships, and propose taxonomic novelties to accommodate them, including up to
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A review of recently introduced Aspergillus, Penicillium, Talaromyces and other Eurotiales species Stud. Mycol. (IF 16.5) Pub Date : 2024-01-11 C.M. Visagie, N. Yilmaz, S. Kocsubé, J.C. Frisvad, V. Hubka, R.A. Samson, J. Houbraken
The order Eurotiales is diverse and includes species that impact our daily lives in many ways. In the past, its taxonomy was difficult due to morphological similarities, which made accurate identification of species difficult. This situation improved and stabilised with recent taxonomic and nomenclatural revisions that modernised Aspergillus, Penicillium and Talaromyces. This was mainly due to the
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Fusarium diversity associated with diseased cereals in China, with an updated phylogenomic assessment of the genus. Stud. Mycol. (IF 16.5) Pub Date : 2023-02-22 S L Han,M M Wang,Z Y Ma,M Raza,P Zhao,J M Liang,M Gao,Y J Li,J W Wang,D M Hu,L Cai
Fusarium species are important cereal pathogens that cause severe production losses to major cereal crops such as maize, rice, and wheat. However, the causal agents of Fusarium diseases on cereals have not been well documented because of the difficulty in species identification and the debates surrounding generic and species concepts. In this study, we used a citizen science initiative to investigate
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Reducing the number of accepted species in Aspergillus series Nigri. Stud. Mycol. (IF 16.5) Pub Date : 2022-12-19 C Bian,Y Kusuya,F Sklenář,E D'hooge,T Yaguchi,S Ban,C M Visagie,J Houbraken,H Takahashi,V Hubka
The Aspergillus series Nigri contains biotechnologically and medically important species. They can produce hazardous mycotoxins, which is relevant due to the frequent occurrence of these species on foodstuffs and in the indoor environment. The taxonomy of the series has undergone numerous rearrangements, and currently, there are 14 species accepted in the series, most of which are considered cryptic
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Consolidation of Chloridium: new classification into eight sections with 37 species and reinstatement of the genera Gongromeriza and Psilobotrys. Stud. Mycol. (IF 16.5) Pub Date : 2022-12-14 M Réblová,M Hernández-Restrepo,F Sklenář,J Nekvindová,K Réblová,M Kolařík
Chloridium is a little-studied group of soil- and wood-inhabiting dematiaceous hyphomycetes that share a rare mode of phialidic conidiogenesis on multiple loci. The genus has historically been divided into three morphological sections, i.e. Chloridium, Gongromeriza, and Psilobotrys. Sexual morphs have been placed in the widely perceived genus Chaetosphaeria, but unlike their asexual counterparts, they
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Taxonomy of Aspergillus series Versicolores: species reduction and lessons learned about intraspecific variability. Stud. Mycol. (IF 16.5) Pub Date : 2022-11-16 F Sklenář,K Glässnerová,Ž Jurjević,J Houbraken,R A Samson,C M Visagie,N Yilmaz,J Gené,J Cano,A J Chen,A Nováková,T Yaguchi,M Kolařík,V Hubka
Aspergillus series Versicolores members occur in a wide range of environments and substrates such as indoor environments, food, clinical materials, soil, caves, marine or hypersaline ecosystems. The taxonomy of the series has undergone numerous re-arrangements including a drastic reduction in the number of species and subsequent recovery to 17 species in the last decade. The identification to species
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A monograph of Aspergillus section Candidi. Stud. Mycol. (IF 16.5) Pub Date : 2022-10-19 K Glässnerová,F Sklenář,Ž Jurjević,J Houbraken,T Yaguchi,C M Visagie,J Gené,J P Z Siqueira,A Kubátová,M Kolařík,V Hubka
Aspergillus section Candidi encompasses white- or yellow-sporulating species mostly isolated from indoor and cave environments, food, feed, clinical material, soil and dung. Their identification is non-trivial due to largely uniform morphology. This study aims to re-evaluate the species boundaries in the section Candidi and present an overview of all existing species along with information on their
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Mortierellaceae from subalpine and alpine habitats: new species of Entomortierella, Linnemannia, Mortierella, Podila and Tyroliella gen. nov. Stud. Mycol. (IF 16.5) Pub Date : 2022-10-18 A Telagathoti,M Probst,E Mandolini,U Peintner
Fungi are incredibly diverse, but they are unexplored, especially in the subalpine and alpine zone. Mortierellaceae are certainly one of the most abundant, species-rich, and widely distributed cultivable soil fungal families in terrestrial habitats, including subalpine and alpine zones. The phylogeny of Mortierellaceae was recently resolved based on current state of the art molecular techniques, and
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Fungal communities in soils under global change. Stud. Mycol. (IF 16.5) Pub Date : 2022-09-21 P Baldrian,L Bell-Dereske,C Lepinay,T Větrovský,P Kohout
Soil fungi play indispensable roles in all ecosystems including the recycling of organic matter and interactions with plants, both as symbionts and pathogens. Past observations and experimental manipulations indicate that projected global change effects, including the increase of CO2 concentration, temperature, change of precipitation and nitrogen (N) deposition, affect fungal species and communities
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Genera of phytopathogenic fungi: GOPHY 4 Stud. Mycol. (IF 16.5) Pub Date : 2022-01-01 Q. Chen,M. Bakhshi,Y. Balci,K.D. Broders,R. Cheewangkoon,S.F. Chen,X.L. Fan,D. Gramaje,F. Halleen,M. Horta Jung,N. Jiang,T. Jung,T. Májek,S. Marincowitz,I. Milenković,L. Mostert,N. Nakashima,I. Nurul Faziha,M. Pan,M. Raza,B. Scanu,C.F.J. Spies,L. Suhaizan,H. Suzuki,C.M. Tian,M. Tomšovský,J.R. Úrbez-Torres,W. Wang,B.D. Wingfield,M.J. Wingfield,Q. Yang,X. Yang,R. Zare,P. Zhao,J.Z. Groenewald,L. Cai,P
This paper is the fourth contribution in the Genera of Phytopathogenic Fungi (GOPHY) series. The series provides morphological descriptions and information about the pathology, distribution, hosts and disease symptoms, as well as DNA barcodes for the taxa covered. Moreover, 12 whole-genome sequences for the type or new species in the treated genera are provided. The fourth paper in the GOPHY series
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Multi-locus phylogeny unmasks hidden species within the specialised spider-parasitic fungus, Gibellula (Hypocreales, Cordycipitaceae) in Thailand Stud. Mycol. (IF 16.5) Pub Date : 2022-01-01 W. Kuephadungphan,B. Petcharad,K. Tasanathai,D. Thanakitpipattana,N. Kobmoo,A. Khonsanit,R.A. Samson,J.J. Luangsa-ard
Over 80 species of hypocrealean fungi are reported as pathogens of spiders and harvestmen. Among these fungi, the genus Gibellula is highly regarded as a specialised spider-killer that has never been reported to infect other arthropods. While more than 20 species of Gibellula are known, few attempts to identify the infected spiders have been made despite the fact that the host specificity can help
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Taxonomy, phylogeny and identification of Chaetomiaceae with emphasis on thermophilic species Stud. Mycol. (IF 16.5) Pub Date : 2022-01-01 X.W. Wang,P.J. Han,F.Y. Bai,A. Luo,K. Bensch,M. Meijer,B. Kraak,D.Y. Han,B.D. Sun,P.W. Crous,J. Houbraken
Chaetomiaceae comprises phenotypically diverse species, which impact biotechnology, the indoor environment and human health. Recent studies showed that most of the traditionally defined genera in Chaetomiaceae are highly polyphyletic. Many of these morphology-based genera, such as Chaetomium, Thielavia and Humicola, have been redefined using multigene phylogenetic analysis combined with morphology;
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Updating species diversity of Colletotrichum, with a phylogenomic overview Stud. Mycol. (IF 16.5) Pub Date : 2022-01-01 F. Liu,Z.Y. Ma,L.W. Hou,Y.Z. Diao,W.P. Wu,U. Damm,S. Song,L. Cai
The genus Colletotrichum includes important plant pathogens, endophytes, saprobes and human pathogens. Even though the polyphasic approach has facilitated Colletotrichum species identification, knowledge of the overall species diversity and host distribution is largely incomplete. To address this, we examined 952 Colletotrichum strains isolated from plants representing 322 species from 248 genera,
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Species diversity, systematic revision and molecular phylogeny of Ganodermataceae (Polyporales, Basidiomycota) with an emphasis on Chinese collections Stud. Mycol. (IF 16.5) Pub Date : 2022-01-01 Y-F Sun,J-H Xing,X-L He,D-M Wu,C-G Song,S Liu,J Vlasák,G Gates,TB Gibertoni,B-K Cui
Ganodermataceae is one of the main families of macrofungi since species in the family are both ecologically and economically important. The double-walled basidiospores with ornamented endospore walls are the characteristic features of Ganodermataceae. It is a large and complex family; although many studies have focused on Ganodermataceae, the global diversity, geographic distribution, taxonomy and
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Generic boundaries in the Ophiostomatales reconsidered and revised Stud. Mycol. (IF 16.5) Pub Date : 2022-01-01 Z.W. De Beer,M. Procter,M.J. Wingfield,S. Marincowitz,T.A. Duong
The Ophiostomatales was erected in 1980. Since that time, several of the genera have been redefined and others have been described. There are currently 14 accepted genera in the Order. They include species that are the causal agents of plant and human diseases and common associates of insects such as bark beetles. Well known examples include the Dutch elm disease fungi and the causal agents of sporotrichosis
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A phylogenetic overview of the Hydnaceae (Cantharellales, Basidiomycota) with new taxa from China. Stud. Mycol. (IF 16.5) Pub Date : 2021-12-23 Ting Cao,Ya-Ping Hu,Jia-Rui Yu,Tie-Zheng Wei,Hai-Sheng Yuan
The family Hydnaceae (Cantharellales, Basidiomycota) is a group of fungi found worldwide which exhibit stichic nuclear division. The group is highly diverse in morphology, ecology, and phylogeny, and includes some edible species which are popular all over the world. Traditionally, Hydnaceae together with Cantharellaceae, Clavulinaceae and Sistotremataceae are four families in the Cantharellales. The
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Trends in the molecular epidemiology and population genetics of emerging Sporothrix species Stud. Mycol. (IF 16.5) Pub Date : 2021-12-17 J.A. de Carvalho, M.A. Beale, F. Hagen, M.C. Fisher, R. Kano, A. Bonifaz, C. Toriello, R. Negroni, R.S. de M. Rego, I.D.F. Gremião, S.A. Pereira, Z.P. de Camargo, A.M. Rodrigues
Sporothrix (Ophiostomatales) comprises species that are pathogenic to humans and other mammals as well as environmental fungi. Developments in molecular phylogeny have changed our perceptions about the epidemiology, host-association, and virulence of Sporothrix. The classical agent of sporotrichosis, Sporothrix schenckii, now comprises several species nested in a clinical clade with S. brasiliensis
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Population genomics reveals historical and ongoing recombination in the Fusarium oxysporum species complex. Stud. Mycol. (IF 16.5) Pub Date : 2021-12-17 A R McTaggart,T Y James,R G Shivas,A Drenth,B D Wingfield,B A Summerell,T A Duong
The Fusarium oxysporum species complex (FOSC) is a group of closely related plant pathogens long-considered strictly clonal, as sexual stages have never been recorded. Several studies have questioned whether recombination occurs in FOSC, and if it occurs its nature and frequency are unknown. We analysed 410 assembled genomes to answer whether FOSC diversified by occasional sexual reproduction interspersed
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Re-examination of species limits in Aspergillus section Flavipedes using advanced species delimitation methods and description of four new species. Stud. Mycol. (IF 16.5) Pub Date : 2021-12-16 F Sklenář,Ž Jurjević,J Houbraken,M Kolařík,M C Arendrup,K M Jørgensen,J P Z Siqueira,J Gené,T Yaguchi,C N Ezekiel,C Silva Pereira,V Hubka
Since the last revision in 2015, the taxonomy of section Flavipedes evolved rapidly along with the availability of new species delimitation techniques. This study aims to re-evaluate the species boundaries of section Flavipedes members using modern delimitation methods applied to an extended set of strains (n = 90) collected from various environments. The analysis used DNA sequences of three house-keeping
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Exploring genetic diversity, population structure, and phylogeography in Paracoccidioides species using AFLP markers Stud. Mycol. (IF 16.5) Pub Date : 2021-11-30 T.N. Roberto, J.A. de Carvalho, M.A. Beale, F. Hagen, M.C. Fisher, R.C. Hahn, Z.P. de Camargo, A.M. Rodrigues
Paracoccidioidomycosis (PCM) is a life-threatening systemic fungal infection acquired after inhalation of Paracoccidioides propagules from the environment. The main agents include members of the P. brasiliensis complex (phylogenetically-defined species S1, PS2, PS3, and PS4) and P. lutzii. DNA-sequencing of protein-coding loci (e.g., GP43, ARF, and TUB1) is the reference method for recognizing Paracoccidioides
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Revision of Cerinomyces (Dacrymycetes, Basidiomycota) with notes on morphologically and historically related taxa. Stud. Mycol. (IF 16.5) Pub Date : 2021-12-01 A Savchenko,J C Zamora,T Shirouzu,V Spirin,V Malysheva,U Kõljalg,O Miettinen
Cerinomyces (Dacrymycetes, Basidiomycota) is a genus traditionally defined by corticioid basidiocarps, in contrast to the rest of the class, which is characterized by gelatinous ones. In the traditional circumscription the genus is polyphyletic, and the monotypic family Cerinomycetaceae is paraphyletic. Aiming for a more concise delimitation, we revise Cerinomyces s.l. with a novel phylogeny based
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Comparative genomic analysis of clinical Candida glabrata isolates identifies multiple polymorphic loci that can improve existing multilocus sequence typing strategy Stud. Mycol. (IF 16.5) Pub Date : 2021-11-29 A. Arastehfar, M. Marcet-Houben, F. Daneshnia, S.J. Taj-Aldeen, D. Batra, S.R. Lockhart, E. Shor, T. Gabaldón, D.S. Perlin
Candida glabrata is the second leading cause of candidemia in many countries and is one of the most concerning yeast species of nosocomial importance due to its increasing rate of antifungal drug resistance and emerging multidrug-resistant isolates. Application of multilocus sequence typing (MLST) to clinical C. glabrata isolates revealed an association of certain sequence types (STs) with drug resistance
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Secondary metabolite biosynthetic diversity in the fungal family Hypoxylaceae and Xylaria hypoxylon. Stud. Mycol. (IF 16.5) Pub Date : 2021-08-26 E Kuhnert,J C Navarro-Muñoz,K Becker,M Stadler,J Collemare,R J Cox
To date little is known about the genetic background that drives the production and diversification of secondary metabolites in the Hypoxylaceae. With the recent availability of high-quality genome sequences for 13 representative species and one relative (Xylaria hypoxylon) we attempted to survey the diversity of biosynthetic pathways in these organisms to investigate their true potential as secondary
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Fusarium: more than a node or a foot-shaped basal cell. Stud. Mycol. (IF 16.5) Pub Date : 2021-08-17 P W Crous,L Lombard,M Sandoval-Denis,K A Seifert,H-J Schroers,P Chaverri,J Gené,J Guarro,Y Hirooka,K Bensch,G H J Kema,S C Lamprecht,L Cai,A Y Rossman,M Stadler,R C Summerbell,J W Taylor,S Ploch,C M Visagie,N Yilmaz,J C Frisvad,A M Abdel-Azeem,J Abdollahzadeh,A Abdolrasouli,A Akulov,J F Alberts,J P M Araújo,H A Ariyawansa,M Bakhshi,M Bendiksby,A Ben Hadj Amor,J D P Bezerra,T Boekhout,M P S Câmara,M
Recent publications have argued that there are potentially serious consequences for researchers in recognising distinct genera in the terminal fusarioid clade of the family Nectriaceae. Thus, an alternate hypothesis, namely a very broad concept of the genus Fusarium was proposed. In doing so, however, a significant body of data that supports distinct genera in Nectriaceae based on morphology, biology
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Aspergillus fumigatus and aspergillosis: From basics to clinics Stud. Mycol. (IF 16.5) Pub Date : 2021-05-10 A. Arastehfar, A. Carvalho, J. Houbraken, L. Lombardi, R. Garcia-Rubio, J.D. Jenks, O. Rivero-Menendez, R. Aljohani, I.D. Jacobsen, J. Berman, N. Osherov, M.T. Hedayati, M. Ilkit, D. James-Armstrong, T. Gabaldón, J. Meletiadis, M. Kostrzewa, W. Pan, M. Hoenigl
The airborne fungus Aspergillus fumigatus poses a serious health threat to humans by causing numerous invasive infections and a notable mortality in humans, especially in immunocompromised patients. Mould-active azoles are the frontline therapeutics employed to treat aspergillosis. The global emergence of azole-resistant A. fumigatus isolates in clinic and environment, however, notoriously limits the
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Reconsideration of species boundaries and proposed DNA barcodes for Calonectria Stud. Mycol. (IF 16.5) Pub Date : 2020-10-07 Q.L. Liu, J.Q. Li, M.J. Wingfield, T.A. Duong, B.D. Wingfield, P.W. Crous, S.F. Chen
Calonectria represents a genus of phytopathogenic ascomycetous fungi with a worldwide distribution. In recent years, there has been an increase in the number of taxonomic studies on these fungi. Currently, there are 169 described species of Calonectria based on comparisons of DNA sequence data, combined with morphological characteristics. However, for some of these species, the sequence data utilised
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Classification of Aspergillus, Penicillium, Talaromyces and related genera (Eurotiales): An overview of families, genera, subgenera, sections, series and species. Stud. Mycol. (IF 16.5) Pub Date : 2020-06-27 J Houbraken,S Kocsubé,C M Visagie,N Yilmaz,X-C Wang,M Meijer,B Kraak,V Hubka,K Bensch,R A Samson,J C Frisvad
The Eurotiales is a relatively large order of Ascomycetes with members frequently having positive and negative impact on human activities. Species within this order gain attention from various research fields such as food, indoor and medical mycology and biotechnology. In this article we give an overview of families and genera present in the Eurotiales and introduce an updated subgeneric, sectional
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Phylogenetic origins and family classification of typhuloid fungi, with emphasis on Ceratellopsis, Macrotyphula and Typhula (Basidiomycota). Stud. Mycol. (IF 16.5) Pub Date : 2020-06-12 I Olariaga,S Huhtinen,T Læssøe,J H Petersen,K Hansen
Typhuloid fungi are a very poorly known group of tiny clavarioid homobasidiomycetes. The phylogenetic position and family classification of the genera targeted here, Ceratellopsis, Macrotyphula, Pterula sensu lato and Typhula, are controversial and based on unresolved phylogenies. Our six-gene phylogeny with an expanded taxon sampling shows that typhuloid fungi evolved at least twice in the Agaricales
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The phoma-like dilemma. Stud. Mycol. (IF 16.5) Pub Date : 2020-05-21 L W Hou,J Z Groenewald,L H Pfenning,O Yarden,P W Crous,L Cai
Species of Didymellaceae have a cosmopolitan distribution and are geographically widespread, occurring in diverse ecosystems. The family includes several important plant pathogenic fungi associated with fruit, leaf, stem and root diseases on a wide variety of hosts, as well as endophytic, saprobic and clinically relevant species. The Didymellaceae was recently revised based on morphological and phylogenetic
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Revisiting Metarhizium and the description of new species from Thailand. Stud. Mycol. (IF 16.5) Pub Date : 2020-05-05 S Mongkolsamrit,A Khonsanit,D Thanakitpipattana,K Tasanathai,W Noisripoom,S Lamlertthon,W Himaman,J Houbraken,R A Samson,J Luangsa-Ard
Over the last two decades the molecular phylogeny and classification of Metarhizium has been widely studied. Despite these efforts to understand this enigmatic genus, the basal lineages in Metarhizium are still poorly resolved. In this study, a phylogenetic framework is reconstructed for the Clavicipitaceae focusing on Metarhizium through increased taxon-sampling using five genomic loci (SSU, LSU,
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Venturiales. Stud. Mycol. (IF 16.5) Pub Date : 2020-04-09 M Shen,J Q Zhang,L L Zhao,J Z Groenewald,P W Crous,Y Zhang
Members of Venturiales (Dothideomycetes) are widely distributed, and comprise saprobes, as well as plant, human and animal pathogens. In spite of their economic importance, the general lack of cultures and DNA data has resulted in taxa being poorly resolved. In the present study five loci, ITS, LSU rDNA, tef1, tub2 and rpb2 are used for analysing 115 venturialean taxa representing 30 genera in three
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Mollisiaceae: An overlooked lineage of diverse endophytes. Stud. Mycol. (IF 16.5) Pub Date : 2020-03-13 J B Tanney,K A Seifert
Mollisia is a taxonomically neglected discomycete genus (Helotiales, Leotiomycetes) of commonly encountered saprotrophs on decaying plant tissues throughout temperate regions. The combination of indistinct morphological characters, more than 700 names in the literature, and lack of reference DNA sequences presents a major challenge when working with Mollisia. Unidentified endophytes, including strains
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Updating the taxonomy of Aspergillus in South Africa. Stud. Mycol. (IF 16.5) Pub Date : 2020-03-13 C M Visagie,J Houbraken
The taxonomy and nomenclature of the genus Aspergillus and its associated sexual (teleomorphic) genera have been greatly stabilised over the last decade. This was in large thanks to the accepted species list published in 2014 and associated metadata such as DNA reference sequences released at the time. It had a great impact on the community and it has never been easier to identify, publish and describe
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Evolution of lifestyles in Capnodiales. Stud. Mycol. (IF 16.5) Pub Date : 2020-03-05 J Abdollahzadeh,J Z Groenewald,M P A Coetzee,M J Wingfield,P W Crous
The Capnodiales, which includes fungi known as the sooty moulds, represents the second largest order in Dothideomycetes, encompassing morphologically and ecologically diverse fungi with different lifestyles and modes of nutrition. They include saprobes, plant and human pathogens, mycoparasites, rock-inhabiting fungi (RIF), lichenised, epi-, ecto- and endophytes. The aim of this study was to elucidate
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New insights into the systematics of Bactrodesmium and its allies and introducing new genera, species and morphological patterns in the Pleurotheciales and Savoryellales (Sordariomycetes). Stud. Mycol. (IF 16.5) Pub Date : 2020-03-03 Martina Réblová,Margarita Hernández-Restrepo,Jacques Fournier,Jana Nekvindová
The newly discovered systematic placement of Bactrodesmium abruptum, the lectotype species of the genus, prompted a re-evaluation of the traditionally broadly conceived genus Bactrodesmium. Fresh material, axenic cultures and new DNA sequence data of five gene regions of six species, i.e. B. abruptum, B. diversum, B. leptopus, B. obovatum, B. pallidum and B. spilomeum, were studied. Bactrodesmium is
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The global epidemiology of emerging Histoplasma species in recent years Stud. Mycol. (IF 16.5) Pub Date : 2020-03-02 A.M. Rodrigues, M.A. Beale, F. Hagen, M.C. Fisher, P.P.D. Terra, S. de Hoog, R.S.N. Brilhante, R. de Aguiar Cordeiro, D. de Souza Collares Maia Castelo-Branco, M.F.G. Rocha, J.J.C. Sidrim, Z.P. de Camargo
Histoplasmosis is a serious infectious disease in humans caused by Histoplasma spp. (Onygenales), whose natural reservoirs are thought to be soil enriched with bird and bat guano. The true global burden of histoplasmosis is underestimated and frequently the pulmonary manifestations are misdiagnosed as tuberculosis. Molecular data on epidemiology of Histoplasma are still scarce, even though there is
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101 Dothideomycetes genomes: A test case for predicting lifestyles and emergence of pathogens. Stud. Mycol. (IF 16.5) Pub Date : 2020-02-01 S Haridas,R Albert,M Binder,J Bloem,K LaButti,A Salamov,B Andreopoulos,S E Baker,K Barry,G Bills,B H Bluhm,C Cannon,R Castanera,D E Culley,C Daum,D Ezra,J B González,B Henrissat,A Kuo,C Liang,A Lipzen,F Lutzoni,J Magnuson,S J Mondo,M Nolan,R A Ohm,J Pangilinan,H-J Park,L Ramírez,M Alfaro,H Sun,A Tritt,Y Yoshinaga,L-H Zwiers,B G Turgeon,S B Goodwin,J W Spatafora,P W Crous,I V Grigoriev
Dothideomycetes is the largest class of kingdom Fungi and comprises an incredible diversity of lifestyles, many of which have evolved multiple times. Plant pathogens represent a major ecological niche of the class Dothideomycetes and they are known to infect most major food crops and feedstocks for biomass and biofuel production. Studying the ecology and evolution of Dothideomycetes has significant
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Diversity and phylogeny of basidiomycetous yeasts from plant leaves and soil: Proposal of two new orders, three new families, eight new genera and one hundred and seven new species. Stud. Mycol. (IF 16.5) Pub Date : 2020-01-28 A-H Li,F-X Yuan,M Groenewald,K Bensch,A M Yurkov,K Li,P-J Han,L-D Guo,M C Aime,J P Sampaio,S Jindamorakot,B Turchetti,J Inacio,B Fungsin,Q-M Wang,F-Y Bai
Nearly 500 basidiomycetous yeast species were accepted in the latest edition of The Yeasts: A Taxonomic Study published in 2011. However, this number presents only the tip of the iceberg of yeast species diversity in nature. Possibly more than 99 % of yeast species, as is true for many groups of fungi, are yet unknown and await discovery. Over the past two decades nearly 200 unidentified isolates were
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Identification of Rosellinia species as producers of cyclodepsipeptide PF1022 A and resurrection of the genus Dematophora as inferred from polythetic taxonomy. Stud. Mycol. (IF 16.5) Pub Date : 2020-01-26 K Wittstein,A Cordsmeier,C Lambert,L Wendt,E B Sir,J Weber,N Wurzler,L E Petrini,M Stadler
Rosellinia (Xylariaceae) is a large, cosmopolitan genus comprising over 130 species that have been defined based mainly on the morphology of their sexual morphs. The genus comprises both lignicolous and saprotrophic species that are frequently isolated as endophytes from healthy host plants, and important plant pathogens. In order to evaluate the utility of molecular phylogeny and secondary metabolite
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Phylogenetic re-evaluation of Thielavia with the introduction of a new family Podosporaceae. Stud. Mycol. (IF 16.5) Pub Date : 2019-08-21 X W Wang,F Y Bai,K Bensch,M Meijer,B D Sun,Y F Han,P W Crous,R A Samson,F Y Yang,J Houbraken
The genus Thielavia is morphologically defined by having non-ostiolate ascomata with a thin peridium composed of textura epidermoidea, and smooth, single-celled, pigmented ascospores with one germ pore. Thielavia is typified with Th. basicola that grows in close association with a hyphomycete which was traditionally identified as Thielaviopsis basicola. Besides Th. basicola exhibiting the mycoparasitic
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Foliar pathogens of eucalypts Stud. Mycol. (IF 16.5) Pub Date : 2019-08-08 P.W. Crous,M.J. Wingfield,R. Cheewangkoon,A.J. Carnegie,T.I. Burgess,B.A. Summerell,J. Edwards,P.W.J. Taylor,J.Z. Groenewald
Species of eucalypts are commonly cultivated for solid wood and pulp products. The expansion of commercially managed eucalypt plantations has chiefly been driven by their rapid growth and suitability for propagation across a very wide variety of sites and climatic conditions. Infection of foliar fungal pathogens of eucalypts is resulting in increasingly negative impacts on commercial forest industries
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Genera of phytopathogenic fungi: GOPHY 3 Stud. Mycol. (IF 16.5) Pub Date : 2019-06-13 Y. Marin-Felix,M. Hernández-Restrepo,I. Iturrieta-González,D. García,J. Gené,J.Z. Groenewald,L. Cai,Q. Chen,W. Quaedvlieg,R.K. Schumacher,P.W.J. Taylor,C. Ambers,G. Bonthond,J. Edwards,S.A. Krueger-Hadfield,J.J. Luangsa-ard,L. Morton,A. Moslemi,M. Sandoval-Denis,Y.P. Tan,R. Thangavel,N. Vaghefi,R. Cheewangkoon,P.W. Crous
This paper represents the third contribution in the Genera of Phytopathogenic Fungi (GOPHY) series. The series provides morphological descriptions, information about the pathology, distribution, hosts and disease symptoms for the treated genera, as well as primary and secondary DNA barcodes for the currently accepted species included in these. This third paper in the GOPHY series treats 21 genera of
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Sporocadaceae, a family of coelomycetous fungi with appendage-bearing conidia Stud. Mycol. (IF 16.5) Pub Date : 2018-11-17 F. Liu,G. Bonthond,J.Z. Groenewald,L. Cai,P.W. Crous
Species of Sporocadaceae are endophytic, plant pathogenic or saprobic, and associated with a wide range of host plants. Recent molecular studies that have attempted to address familial and generic boundaries of fungi belonging to Sporocadaceae were based on a limited number of samples and DNA loci. The taxonomy of this group of fungi is therefore still not fully resolved. The aim of the present study
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Genomic and exoproteomic diversity in plant biomass degradation approaches among Aspergilli Stud. Mycol. (IF 16.5) Pub Date : 2018-10-29 M.R. Mäkelä,M. DiFalco,E. McDonnell,T.T.M. Nguyen,A. Wiebenga,K. Hildén,M. Peng,I.V. Grigoriev,A. Tsang,R.P. de Vries
We classified the genes encoding carbohydrate-active enzymes (CAZymes) in 17 sequenced genomes representing 16 evolutionarily diverse Aspergillus species. We performed a phylogenetic analysis of the encoding enzymes, along with experimentally characterized CAZymes, to assign molecular function to the Aspergilli CAZyme families and subfamilies. Genome content analysis revealed that the numbers of CAZy
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Inside Plectosphaerellaceae Stud. Mycol. (IF 16.5) Pub Date : 2018-10-27 A. Giraldo,P.W. Crous
The family Plectosphaerellaceae (Glomerellales, Sordariomycetes) includes numerous plant pathogenic genera and soil-borne fungal species. Ten genera are currently accepted, including several taxa that occupy an unresolved position within the family. To address this issue, a multilocus sequence analysis was carried out using partial gene sequences from the 28S large subunit nrRNA gene (LSU), the internal
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The root-symbiotic Rhizoscyphus ericae aggregate and Hyaloscypha (Leotiomycetes) are congeneric: Phylogenetic and experimental evidence. Stud. Mycol. (IF 16.5) Pub Date : 2018-10-11 J Fehrer,M Réblová,V Bambasová,M Vohník
Data mining for a phylogenetic study including the prominent ericoid mycorrhizal fungus Rhizoscyphus ericae revealed nearly identical ITS sequences of the bryophilous Hyaloscypha hepaticicola suggesting they are conspecific. Additional genetic markers and a broader taxonomic sampling furthermore suggested that the sexual Hyaloscypha and the asexual Meliniomyces may be congeneric. In order to further
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Duplications and losses of genes encoding known elements of the stress defence system of the Aspergilli contribute to the evolution of these filamentous fungi but do not directly influence their environmental stress tolerance Stud. Mycol. (IF 16.5) Pub Date : 2018-10-11 T. Emri,K. Antal,R. Riley,Z. Karányi,M. Miskei,E. Orosz,S.E. Baker,A. Wiebenga,R.P. de Vries,I. Pócsi
The contribution of stress protein duplication and deletion events to the evolution of the Aspergilli was studied. We performed a large-scale homology analysis of stress proteins and generated and analysed three stress defence system models based on Saccharomyces cerevisiae, Schizosaccharomyces pombe and Aspergillus nidulans. Although both yeast-based and A. nidulans-based models were suitable to trace
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Evolution of asexual and sexual reproduction in the aspergilli Stud. Mycol. (IF 16.5) Pub Date : 2018-10-11 M. Ojeda-López,W. Chen,C.E. Eagle,G. Gutiérrez,W.L. Jia,S.S. Swilaiman,Z. Huang,H.-S. Park,J.-H. Yu,D. Cánovas,P.S. Dyer
Aspergillus nidulans has long-been used as a model organism to gain insights into the genetic basis of asexual and sexual developmental processes both in other members of the genus Aspergillus, and filamentous fungi in general. Paradigms have been established concerning the regulatory mechanisms of conidial development. However, recent studies have shown considerable genome divergence in the fungal
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The gold-standard genome of Aspergillus niger NRRL 3 enables a detailed view of the diversity of sugar catabolism in fungi Stud. Mycol. (IF 16.5) Pub Date : 2018-10-07 M.V. Aguilar-Pontes,J. Brandl,E. McDonnell,K. Strasser,T.T.M. Nguyen,R. Riley,S. Mondo,A. Salamov,J.L. Nybo,T.C. Vesth,I.V. Grigoriev,M.R. Andersen,A. Tsang,R.P. de Vries
The fungal kingdom is too large to be discovered exclusively by classical genetics. The access to omics data opens a new opportunity to study the diversity within the fungal kingdom and how adaptation to new environments shapes fungal metabolism. Genomes are the foundation of modern science but their quality is crucial when analysing omics data. In this study, we demonstrate how one gold-standard genome
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Redefining Humicola sensu stricto and related genera in the Chaetomiaceae Stud. Mycol. (IF 16.5) Pub Date : 2018-08-07 X.W. Wang,F.Y. Yang,M. Meijer,B. Kraak,B.D. Sun,Y.L. Jiang,Y.M. Wu,F.Y. Bai,K.A. Seifert,P.W. Crous,R.A. Samson,J. Houbraken
The traditional concept of the genus Humicola includes species that produce pigmented, thick-walled and single-celled spores laterally or terminally on hyphae or minimally differentiated conidiophores. More than 50 species have been described in the genus. Species commonly occur in soil, indoor environments, and compost habitats. The taxonomy of Humicola and morphologically similar genera is poorly
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Taxonomy of Aspergillus section Flavi and their production of aflatoxins, ochratoxins and other mycotoxins Stud. Mycol. (IF 16.5) Pub Date : 2018-07-31 J.C. Frisvad,V. Hubka,C.N. Ezekiel,S.-B. Hong,A. Nováková,A.J. Chen,M. Arzanlou,T.O. Larsen,F. Sklenář,W. Mahakarnchanakul,R.A. Samson,J. Houbraken
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Phylogeny and genetic diversity of the banana Fusarium wilt pathogen Fusarium oxysporum f. sp. cubense in the Indonesian centre of origin Stud. Mycol. (IF 16.5) Pub Date : 2018-07-05 N. Maryani,L. Lombard,Y.S. Poerba,S. Subandiyah,P.W. Crous,G.H.J. Kema
Fusarium oxysporum f. sp. cubense (Foc), the causal agent of Fusarium wilt or Panama disease on banana, is one of the major constraints in banana production worldwide. Indonesia is the centre of origin for wild and cultivated bananas, which likely co-evolved with Foc. This study explored the widest possible genetic diversity of Foc by sampling across Indonesia at 34 geographically and environmentally
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Cyclins in aspergilli: Phylogenetic and functional analyses of group I cyclins. Stud. Mycol. (IF 16.5) Pub Date : 2018-06-20 V Paolillo,C B Jenkinson,T Horio,B R Oakley
We have identified the cyclin domain-containing proteins encoded by the genomes of 17 species of Aspergillus as well as 15 members of other genera of filamentous ascomycetes. Phylogenetic analyses reveal that the cyclins fall into three groups, as in other eukaryotic phyla, and, more significantly, that they are remarkably conserved in these fungi. All 32 species examined, for example, have three group
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Large-scale generation and analysis of filamentous fungal DNA barcodes boosts coverage for kingdom fungi and reveals thresholds for fungal species and higher taxon delimitation Stud. Mycol. (IF 16.5) Pub Date : 2018-05-30 D. Vu,M. Groenewald,M. de Vries,T. Gehrmann,B. Stielow,U. Eberhardt,A. Al-Hatmi,J.Z. Groenewald,G. Cardinali,J. Houbraken,T. Boekhout,P.W. Crous,V. Robert,G.J.M. Verkley
Species identification lies at the heart of biodiversity studies that has in recent years favoured DNA-based approaches. Microbial Biological Resource Centres are a rich source for diverse and high-quality reference materials in microbiology, and yet the strains preserved in these biobanks have been exploited only on a limited scale to generate DNA barcodes. As part of a project funded in the Netherlands
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Genera of phytopathogenic fungi: GOPHY 2 Stud. Mycol. (IF 16.5) Pub Date : 2018-05-01 Y. Marin-Felix, M. Hernández-Restrepo, M.J. Wingfield, A. Akulov, A.J. Carnegie, R. Cheewangkoon, D. Gramaje, J.Z. Groenewald, V. Guarnaccia, F. Halleen, L. Lombard, J. Luangsa-ard, S. Marincowitz, A. Moslemi, L. Mostert, W. Quaedvlieg, R.K. Schumacher, C.F.J. Spies, R. Thangavel, P.W.J. Taylor, A.M. Wilson, B.D. Wingfield, A.R. Wood, P.W. Crous
This paper represents the second contribution in the Genera of Phytopathogenic Fungi (GOPHY) series. The series provides morphological descriptions and information regarding the pathology, distribution, hosts and disease symptoms for the treated genera. In addition, primary and secondary DNA barcodes for the currently accepted species are inlcuded. This second paper in the GOPHY series treats 20 genera
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Genera of phytopathogenic fungi: GOPHY 2 Stud. Mycol. (IF 16.5) Pub Date : 2018-05-01 Y. Marin-Felix,M. Hernández-Restrepo,M.J. Wingfield,A. Akulov,A.J. Carnegie,R. Cheewangkoon,D. Gramaje,J.Z. Groenewald,V. Guarnaccia,F. Halleen,L. Lombard,J. Luangsa-ard,S. Marincowitz,A. Moslemi,L. Mostert,W. Quaedvlieg,R.K. Schumacher,C.F.J. Spies,R. Thangavel,P.W.J. Taylor,A.M. Wilson,B.D. Wingfield,A.R. Wood,P.W. Crous
This paper represents the second contribution in the Genera of Phytopathogenic Fungi (GOPHY) series. The series provides morphological descriptions and information regarding the pathology, distribution, hosts and disease symptoms for the treated genera. In addition, primary and secondary DNA barcodes for the currently accepted species are included. This second paper in the GOPHY series treats 20 genera
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The Colletotrichum dracaenophilum, C. magnum and C. orchidearum species complexes Stud. Mycol. (IF 16.5) Pub Date : 2018-04-07 U. Damm,T. Sato,A. Alizadeh,J.Z. Groenewald,P.W. Crous
Although Glomerella glycines, Colletotrichum magnum and C. orchidearum are known as causal agents of anthracnose of soybean, Cucurbitaceae and Orchidaceae, respectively, their taxonomy remains unresolved. In preliminary analyses based on ITS, strains of these species appear basal in Colletotrichum phylogenies, clustering close to C. cliviae, C. brevisporum and other recently described species from
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Cladosporium species in indoor environments Stud. Mycol. (IF 16.5) Pub Date : 2018-03-07 K. Bensch, J.Z. Groenewald, M. Meijer, J. Dijksterhuis, Ž. Jurjevic, J. Houbraken, P.W. Crous, R.A. Samson
As part of a worldwide survey of the indoor mycobiota about 520 new Cladosporium isolates from indoor environments mainly collected in China, Europe, New Zealand, North America and South Africa were investigated by using a polyphasic approach to determine their species identity. All Cladosporium species occurring in indoor environments are fully described and illustrated. Fourty-six Cladosporium species
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Cladosporium species in indoor environments Stud. Mycol. (IF 16.5) Pub Date : 2018-03-07 K. Bensch, J.Z. Groenewald, M. Meijer, J. Dijksterhuis, Ž. Jurjević, B. Andersen, J. Houbraken, P.W. Crous, R.A. Samson
As part of a worldwide survey of the indoor mycobiota about 520 new Cladosporium isolates from indoor environments mainly collected in China, Europe, New Zealand, North America and South Africa were investigated by using a polyphasic approach to determine their species identity. All Cladosporium species occurring in indoor environments are fully described and illustrated. Fourty-six Cladosporium species