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Polypore fungi as a flagship group to indicate changes in biodiversity – a test case from Estonia IMA Fungus (IF 3.636) Pub Date : 2021-01-18 Kadri Runnel; Otto Miettinen; Asko Lõhmus
Polyporous fungi, a morphologically delineated group of Agaricomycetes (Basidiomycota), are considered well studied in Europe and used as model group in ecological studies and for conservation. Such broad interest, including widespread sampling and DNA based taxonomic revisions, is rapidly transforming our basic understanding of polypore diversity and natural history. We integrated over 40,000 historical
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A fungus-eat-fungus world: Digitopodium, with particular reference to mycoparasites of the coffee leaf rust, Hemileia vastatrix IMA Fungus (IF 3.636) Pub Date : 2021-01-05 Adans A. Colmán; Harry C. Evans; Sara S. Salcedo-Sarmiento; Uwe Braun; Kifle Belachew-Bekele; Robert W. Barreto
Digitopodium hemileiae was described originally in 1930 as Cladosporium hemileiae; growing as a mycoparasite of the coffee leaf rust (CLR), Hemileia vastatrix, in a sample of diseased leaves of Coffea canephora collected in the Democratic Republic of Congo. No cultures from this material exist. More recently, the type material was re-examined and, based on morphological features, considered to be incorrectly
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MycoNews 2020: President’s message, news, reports, awards, personalia, book news, and correspondence IMA Fungus (IF 3.636) Pub Date : 2020-12-31 David L. Hawksworth
This second annual edition of MycoNews starts with a message from IMA President Wieland Meyer regarding the steps being taken to legally incorporate the Association in Switzerland. News is provided on progress in the arrangements for IMC12 (Amsterdam 2022), release of the State of World’s Plants and Fungi report, mycology under the Coronavirus pandemic, and two new biodiversity initiatives in The Netherlands
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Using target enrichment sequencing to study the higher-level phylogeny of the largest lichen-forming fungi family: Parmeliaceae (Ascomycota) IMA Fungus (IF 3.636) Pub Date : 2020-12-14 Felix Grewe; Claudio Ametrano; Todd J. Widhelm; Steven Leavitt; Isabel Distefano; Wetchasart Polyiam; David Pizarro; Mats Wedin; Ana Crespo; Pradeep K. Divakar; H. Thorsten Lumbsch
Parmeliaceae is the largest family of lichen-forming fungi with a worldwide distribution. We used a target enrichment data set and a qualitative selection method for 250 out of 350 genes to infer the phylogeny of the major clades in this family including 81 taxa, with both subfamilies and all seven major clades previously recognized in the subfamily Parmelioideae. The reduced genome-scale data set
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Setting scientific names at all taxonomic ranks in italics facilitates their quick recognition in scientific papers IMA Fungus (IF 3.636) Pub Date : 2020-11-17 Marco Thines; Takayuki Aoki; Pedro W. Crous; Kevin D. Hyde; Robert Lücking; Elaine Malosso; Tom W. May; Andrew N. Miller; Scott A. Redhead; Andrey M. Yurkov; David L. Hawksworth
It is common practice in scientific journals to print genus and species names in italics. This is not only historical as species names were traditionally derived from Greek or Latin. Importantly, it also facilitates the rapid recognition of genus and species names when skimming through manuscripts. However, names above the genus level are not always italicized, except in some journals which have adopted
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The 256 kb mitochondrial genome of Clavaria fumosa is the largest among phylum Basidiomycota and is rich in introns and intronic ORFs IMA Fungus (IF 3.636) Pub Date : 2020-11-14 Xu Wang; Yajie Wang; Wen Yao; Jinwen Shen; Mingyue Chen; Ming Gao; Jiening Ren; Qiang Li; Na Liu
In the present study, the complete mitogenome of Clavaria fumosa, was sequenced, assembled, and compared. The complete mitogenome of C. fumosa is 256,807 bp in length and is the largest mitogenomes among all Basidiomycota mitogenomes reported. Comparative mitogenomic analysis indicated that the C. fumosa mitogenome contained the most introns and intronic ORFs among all fungal mitogenomes. Large intergenic
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Testing spore amyloidity in Agaricales under light microscope: the case study of Tricholoma IMA Fungus (IF 3.636) Pub Date : 2020-11-11 Alfredo Vizzini; Giovanni Consiglio; Ledo Setti
Although species of the genus Tricholoma are currently considered to produce inamyloid spores, a novel standardized method to test sporal amyloidity (which involves heating the sample in Melzer’s reagent) showed evidence that in the tested species of this genus, which belong in all 10 sections currently recognized from Europe, the spores are amyloid. In two species, T. josserandii and T. terreum, the
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Naming the untouchable – environmental sequences and niche partitioning as taxonomical evidence in fungi IMA Fungus (IF 3.636) Pub Date : 2020-11-03 Faheema Kalsoom Khan; Kerri Kluting; Jeanette Tångrot; Hector Urbina; Tea Ammunet; Shadi Eshghi Sahraei; Martin Rydén; Martin Ryberg; Anna Rosling
Due to their submerged and cryptic lifestyle, the vast majority of fungal species are difficult to observe and describe morphologically, and many remain known to science only from sequences detected in environmental samples. The lack of practices to delimit and name most fungal species is a staggering limitation to communication and interpretation of ecology and evolution in kingdom Fungi. Here, we
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Variation in Botryosphaeriaceae from Eucalyptus plantations in YunNan Province in southwestern China across a climatic gradient IMA Fungus (IF 3.636) Pub Date : 2020-10-15 Guoqing Li; Bernard Slippers; Michael J. Wingfield; Shuaifei Chen
The Botryosphaeriaceae accommodates many important pathogens of woody plants, including Eucalyptus. Recently, Botryosphaeriaceae were isolated from diseased plant parts from surveys of Eucalyptus plantations in the YunNan Province, China. The aims of this study were to identify these Botryosphaeriaceae isolates and to evaluate their pathogenicity to Eucalyptus. A total of 166 isolates of Botryosphaeriaceae
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The Collection of Zoosporic Eufungi at the University of Michigan (CZEUM): introducing a new repository of barcoded Chytridiomyceta and Blastocladiomycota cultures IMA Fungus (IF 3.636) Pub Date : 2020-10-06 D. Rabern Simmons; Anne E. Bonds; Buck T. Castillo; Rebecca A. Clemons; Alex D. Glasco; Jillian M. Myers; Natasha Thapa; Peter M. Letcher; Martha J. Powell; Joyce E. Longcore; Timothy Y. James
We formed the Collection of Zoosporic Eufungi at the University of Michigan (CZEUM) in 2018 as a cryopreserved fungal collection consolidating the University of Maine Culture Collection (UMCC, or JEL), the University of Alabama Chytrid Culture Collection (UACCC), and additional zoosporic eufungal accessions. The CZEUM is established as a community resource containing 1045 cryopreserved cultures of
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Procedures and timetable for proposals to amend Chapter F of the International Code of Nomenclature for algae, fungi, and plants IMA Fungus (IF 3.636) Pub Date : 2020-09-24 Tom W. May
Procedures for preparing and submitting proposals to amend or enhance Chapter F of the International Code of Nomenclature for algae, fungi, and plants are provided. Such proposals will be considered by the Fungal Nomenclature Session of the XII International Mycological Congress to he held in Amsterdam in 2022. A timetable is laid out for the submission of proposals, due by 31 December 2021, their
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IMA Genome - F13 IMA Fungus (IF 3.636) Pub Date : 2020-09-24 P. Markus Wilken; Janneke Aylward; Ramesh Chand; Felix Grewe; Frances A. Lane; Shagun Sinha; Claudio Ametrano; Isabel Distefano; Pradeep K. Divakar; Tuan A. Duong; Sabine Huhndorf; Ravindra N. Kharwar; H. Thorsten Lumbsch; Sudhir Navathe; Carlos A. Pérez; Nazaret Ramírez-Berrutti; Rohit Sharma; Yukun Sun; Brenda D. Wingfield; Michael J. Wingfield
Draft genomes of the fungal species Ambrosiella cleistominuta, Cercospora brassicicola, C. citrullina, Physcia stellaris, and Teratosphaeria pseudoeucalypti are presented. Physcia stellaris is an important lichen forming fungus and Ambrosiella cleistominuta is an ambrosia beetle symbiont. Cercospora brassicicola and C. citrullina are agriculturally relevant plant pathogens that cause leaf-spots in
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RIP mutated ITS genes in populations of Ophiocordyceps sinensis and their implications for molecular systematics IMA Fungus (IF 3.636) Pub Date : 2020-09-16 Yi Li; Lan Jiang; Ke Wang; Hai-Jun Wu; Rui-Heng Yang; Yu-Jing Yan; Kathryn E. Bushley; David L. Hawksworth; Zujian Wu; Yi-Jian Yao
Different hypotheses have been proposed to interpret the observed unusual ITS (internal transcribed spacer) sequences in Ophiocordyceps sinensis. The coexistence of diverged ITS paralogs in a single genome was previously shown by amplifying the ITS region from mono-ascospore isolates using specific primers designed for different ITS paralog groups. Among those paralogs, are AT-biased ITS sequences
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Distinct fungal communities associated with different organs of the mangrove Sonneratia alba in the Malay Peninsula IMA Fungus (IF 3.636) Pub Date : 2020-09-15 Nicole Li Ying Lee; Danwei Huang; Zheng Bin Randolph Quek; Jen Nie Lee; Benjamin J. Wainwright
Mangrove forests are key tropical marine ecosystems that are rich in fungi, but our understanding of fungal communities associated with mangrove trees and their various organs remains limited because much of the diversity lies within the microbiome. In this study, we investigated the fungal communities associated with the mangrove tree Sonneratia alba throughout Peninsular Malaysia and Singapore. At
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Brassicaceous roots as an unexpected diversity hot-spot of helotialean endophytes. IMA Fungus (IF 3.636) Pub Date : 2020-08-11 Jose G Maciá-Vicente,Meike Piepenbring,Ondřej Koukol
A high number of fungal strains were isolated from roots of Brassicaceae species collected across western and southern Europe, resulting in an unexpectedly rich collection of Cadophora species. These isolates enable us to present a new and comprehensive view of the ecological, morphological, and phylogenetic traits of root-inhabiting members of this helotialean genus. We provide phylogenetic placement
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Ophiostomatoid fungi associated with mites phoretic on bark beetles in Qinghai, China. IMA Fungus (IF 3.636) Pub Date : 2020-07-30 Runlei Chang,Tuan A Duong,Stephen J Taerum,Michael J Wingfield,XuDong Zhou,Z Wilhelm de Beer
Bark beetle galleries are complex ecosystems where many microbes and other arthropods co-exist with the beetles. Fungi isolated from these galleries are often referred to as ‘beetle associates’, but the nature of these associations are poorly understood. The possibility that many of these fungi might in fact be mite associates is often overlooked. Several recent studies explored the diversity of fungi
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Unambiguous identification of fungi: where do we stand and how accurate and precise is fungal DNA barcoding? IMA Fungus (IF 3.636) Pub Date : 2020-07-10 Robert Lücking,M Catherine Aime,Barbara Robbertse,Andrew N Miller,Hiran A Ariyawansa,Takayuki Aoki,Gianluigi Cardinali,Pedro W Crous,Irina S Druzhinina,David M Geiser,David L Hawksworth,Kevin D Hyde,Laszlo Irinyi,Rajesh Jeewon,Peter R Johnston,Paul M Kirk,Elaine Malosso,Tom W May,Wieland Meyer,Maarja Öpik,Vincent Robert,Marc Stadler,Marco Thines,Duong Vu,Andrey M Yurkov,Ning Zhang,Conrad L Schoch
True fungi (Fungi) and fungus-like organisms (e.g. Mycetozoa, Oomycota) constitute the second largest group of organisms based on global richness estimates, with around 3 million predicted species. Compared to plants and animals, fungi have simple body plans with often morphologically and ecologically obscure structures. This poses challenges for accurate and precise identifications. Here we provide
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Mapping mycological ignorance - checklists and diversity patterns of fungi known for West Africa. IMA Fungus (IF 3.636) Pub Date : 2020-07-07 Meike Piepenbring,Jose G Maciá-Vicente,Jean Evans I Codjia,Carola Glatthorn,Paul Kirk,Yalemwork Meswaet,David Minter,Boris Armel Olou,Kai Reschke,Marco Schmidt,Nourou Soulemane Yorou
Scientific information about biodiversity distribution is indispensable for nature conservation and sustainable management of natural resources. For several groups of animals and plants, such data are available, but for fungi, especially in tropical regions like West Africa, they are mostly missing. Here, information for West African countries about species diversity of fungi and fungus-like organisms
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Comparative mitogenome analysis of two ectomycorrhizal fungi (Paxillus) reveals gene rearrangement, intron dynamics, and phylogeny of basidiomycetes. IMA Fungus (IF 3.636) Pub Date : 2020-07-02 Qiang Li,Yuanhang Ren,Dabing Xiang,Xiaodong Shi,Jianglin Zhao,Lianxin Peng,Gang Zhao
In this study, the mitogenomes of two Paxillus species were assembled, annotated and compared. The two mitogenomes of Paxillus involutus and P. rubicundulus comprised circular DNA molecules, with the size of 39,109 bp and 41,061 bp, respectively. Evolutionary analysis revealed that the nad4L gene had undergone strong positive selection in the two Paxillus species. In addition, 10.64 and 36.50% of the
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Molecular characterization of siderophore biosynthesis in Paracoccidioides brasiliensis. IMA Fungus (IF 3.636) Pub Date : 2020-06-29 Marielle Garcia Silva,Juliana Santana de Curcio,Mirelle Garcia Silva-Bailão,Raisa Melo Lima,Mariana Vieira Tomazett,Aparecido Ferreira de Souza,Vanessa Rafaela Milhomem Cruz-Leite,Nicolau Sbaraini,Alexandre Melo Bailão,Fernando Rodrigues,Maristela Pereira,Relber Aguiar Gonçales,Célia Maria de Almeida Soares
Iron is an essential nutrient for all organisms. For pathogenic fungi, iron is essential for the success of infection. Thus, these organisms have developed high affinity iron uptake mechanisms to deal with metal deprivation imposed by the host. Siderophore production is one of the mechanisms that fungal pathogens employ for iron acquisition. Paracoccidioides spp. present orthologous genes encoding
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The saprotrophic Pleurotus ostreatus species complex: late Eocene origin in East Asia, multiple dispersal, and complex speciation. IMA Fungus (IF 3.636) Pub Date : 2020-06-08 Jing Li,Li-Hong Han,Xiao-Bin Liu,Zhi-Wei Zhao,Zhu L Yang
The Pleurotus ostreatus species complex is saprotrophic and of significant economic and ecological importance. However, species delimitation has long been problematic because of phenotypic plasticity and morphological stasis. In addition, the evolutionary history is poorly understood due to limited sampling and insufficient gene fragments employed for phylogenetic analyses. Comprehensive sampling from
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Propionate metabolism in a human pathogenic fungus: proteomic and biochemical analyses. IMA Fungus (IF 3.636) Pub Date : 2020-05-05 Luiz Paulo Araújo Santos,Leandro do Prado Assunção,Patrícia de Souza Lima,Gabriel Brum Tristão,Matthias Brock,Clayton Luiz Borges,Mirelle Garcia Silva-Bailão,Célia Maria de Almeida Soares,Alexandre Melo Bailão
Fungi of the complex Paracoccidioides spp. are thermodimorphic organisms that cause Paracoccidioidomycosis, one of the most prevalent mycoses in Latin America. These fungi present metabolic mechanisms that contribute to the fungal survival in host tissues. Paracoccidioides lutzii activates glycolysis and fermentation while inactivates aerobic metabolism in iron deprivation, a condition found during
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Correction to: Ophiostomatoid fungi associated with Ips subelongatus, including eight new species from northeastern China IMA Fungus (IF 3.636) Pub Date : 2020-04-20 Zheng Wang; Ya Liu; Huimin Wang; Xianjing Meng; Xuewei Liu; Cony Decock; Xingyao Zhang; Quan Lu
Following publication of the original article [1], the authors reported that Table 1 contained some errors in the GenBank number of BT gene. The correct Table 1 is presented below.
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Correction to: Proposal of a new nomenclature for introns in protein-coding genes in fungal mitogenomes IMA Fungus (IF 3.636) Pub Date : 2020-03-23 Shu Zhang; Yong-Jie Zhang
After publication of our article (Zhang and Zhang 2019) we have been notified us that the nad4L sequence should be corrected in Additional file 1. All sequences in the file should be that of NC_036382 (GenBank accession number), but have been erroneously pasted as the nad4L sequence of NC_001715.
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Evaluation of low cryptococcal antigen titer as determined by the lateral flow assay in serum and cerebrospinal fluid among HIV-negative patients: a retrospective diagnostic accuracy study. IMA Fungus (IF 3.636) Pub Date : 2020-03-10 Xuan Wang,Jia-Hui Cheng,Ling-Hong Zhou,Jun-Hao Zhu,Rui-Ying Wang,Hua-Zhen Zhao,Ying-Kui Jiang,Li-Ping Huang,Ching-Wan Yip,Chun-Xing Que,Min Zhu,Li-Ping Zhu
Cryptococcosis is one of the most common opportunistic infections in both immunocompetent and immunocompromised hosts. Although the cryptococcal antigen (CrAg) lateral flow assay (LFA) has been widely used in clinical settings due to its high sensitivity and specificity, the diagnostic value of a low CrAg LFA titers remains unclear. In this study, we performed a retrospective analysis of 149 HIV-negative
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Heterothallism and potential hybridization events inferred for twenty-two yellow morel species. IMA Fungus (IF 3.636) Pub Date : 2020-02-12 Xi-Hui Du,Dongmei Wu,Heng Kang,Hanchen Wang,Nan Xu,Tingting Li,Keliang Chen
Mating-type genes are central to sexual reproduction in ascomycete fungi and result in the establishment of reproductive barriers. Together with hybridization, they both play important roles in the evolution of fungi. Recently, potential hybridization events and MAT genes were separately found in the Elata Clade of Morchella. Herein, we characterized the MAT1–1-1 and MAT1–2-1 genes of twenty-two species
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A new genus and species of foliicolous lichen in a new family of Strigulales (Ascomycota: Dothideomycetes) reveals remarkable class-level homoplasy. IMA Fungus (IF 3.636) Pub Date : 2020-02-05 Shu Hua Jiang,David L Hawksworth,Robert Lücking,Jiang Chun Wei
Phylogenetic analysis of some foliicolous lichens collected in Hainan Province, China, revealed a new lineage morphologically similar to Porina but phylogenetically related to Strigulaceae (Dothideomycetes), differing from the latter in ascus type. The monospecific genus Tenuitholiascus gen. nov. is introduced for the single species, T. porinoides sp. nov., which is placed in the new, monogeneric family
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Ophiostomatoid fungi associated with Ips subelongatus, including eight new species from northeastern China. IMA Fungus (IF 3.636) Pub Date : 2020-01-31 Zheng Wang,Ya Liu,Huimin Wang,Xianjing Meng,Xuewei Liu,Cony Decock,Xingyao Zhang,Quan Lu
Ips subelongatus is a major pest that infects larch plantations over large areas of northern and northeastern China. Ips species are closely associated with ophiostomatoid fungi that are morphologically well-adapted for dispersal by beetles. These associations result in important threat for coniferous forests worldwide. The aim of this study was to characterize the ophiostomatoid communities associated
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Reclassification of Pterulaceae Corner (Basidiomycota: Agaricales) introducing the ant-associated genus Myrmecopterula gen. nov., Phaeopterula Henn. and the corticioid Radulomycetaceae fam. nov. IMA Fungus (IF 3.636) Pub Date : 2020-01-30 Caio A Leal-Dutra,Gareth W Griffith,Maria Alice Neves,David J McLaughlin,Esther G McLaughlin,Lina A Clasen,Bryn T M Dentinger
Pterulaceae was formally proposed to group six coralloid and dimitic genera: Actiniceps (=Dimorphocystis), Allantula, Deflexula, Parapterulicium, Pterula, and Pterulicium. Recent molecular studies have shown that some of the characters currently used in Pterulaceae do not distinguish the genera. Actiniceps and Parapterulicium have been removed, and a few other resupinate genera were added to the family
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MycoNews 2019: editorials, news, reports, awards, personalia, book news, and correspondence. IMA Fungus (IF 3.636) Pub Date : 2019-12-30 David L Hawksworth
This first instalment of MycoNews includes: an Editorial “Do we need more governance in taxonomy?”; reports of mycological meetings in Poland (18th Congress of European Mycologists), Iran (4th Iranian Mycological Congress) and Chile (1st Chilean Meeting of Mycology (I Encuentro Chileno de Micología); an award to Lynne Boddy; birthday greetings to Gro Gulden, Marja Härkönen, Gregoire Hennebert, Hannes
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Draft genome sequences of five Calonectria species from Eucalyptus plantations in China, Celoporthe dispersa, Sporothrix phasma and Alectoria sarmentosa. IMA Fungus (IF 3.636) Pub Date : 2019-12-27 Feifei Liu,Shuaifei Chen,Maria A Ferreira,Runlei Chang,Mohammad Sayari,Aquillah M Kanzi,Brenda D Wingfield,Michael J Wingfield,David Pizarro,Ana Crespo,Pradeep K Divakar,Z Wilhelm de Beer,Tuan A Duong
Draft genome sequences of five Calonectria species [including Calonectria aciculata, C. crousiana, C. fujianensis, C. honghensis and C. pseudoturangicola], Celoporthe dispersa, Sporothrix phasma and Alectoria sarmentosa are presented. Species of Calonectria are the causal agents of Eucalyptus leaf blight disease, threatening the growth and sustainability of Eucalyptus plantations in China. Celoporthe
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Chapter F of the International Code of Nomenclature for algae, fungi, and plants as approved by the 11th International Mycological Congress, San Juan, Puerto Rico, July 2018. IMA Fungus (IF 3.636) Pub Date : 2019-12-27 Tom W May,Scott A Redhead,Konstanze Bensch,David L Hawksworth,James Lendemer,Lorenzo Lombard,Nicholas J Turland
A revised version of Chapter F of the International Code of Nomenclature for algae, fungi, and plants is presented, incorporating amendments approved by the Fungal Nomenclature Session of the 11th International Mycological Congress held in San Juan, Puerto Rico in July 2018. The process leading to the amendments is outlined. Key changes in the San Juan Chapter F are (1) removal of option to use a colon
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Diversity of xerotolerant and xerophilic fungi in honey. IMA Fungus (IF 3.636) Pub Date : 2019-11-27 E Rodríguez-Andrade,A M Stchigel,A Terrab,J Guarro,J F Cano-Lira
Fungi can colonize most of the substrata on Earth. Honey, a sugary food produced by bees (and other insects) has been studied little in terms of its fungal diversity. We have surveyed and evaluated the presence of xerotolerant and xerophilic fungi in a set of honey bee samples collected from across Spain. From 84 samples, a total of 104 fungal strains were isolated, and morphologically and phylogenetically
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A taxonomic summary and revision of Rozella (Cryptomycota). IMA Fungus (IF 3.636) Pub Date : 2019-01-10 Peter M Letcher,Martha J Powell
Rozella is a genus of endoparasites of a broad range of hosts. Most species are known by their morphology and host specificity, while only three have been examined ultrastructurally and had portions of their genome sequenced. Determined in molecular phylogenies to be the earliest diverging lineage in kingdom Fungi, Rozella currently nests among an abundance of environmental sequences in phylum Cryptomycota
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Molecular phylogeny of Cytospora species associated with canker diseases of fruit and nut crops in California, with the descriptions of ten new species and one new combination. IMA Fungus (IF 3.636) Pub Date : 2019-01-10 Daniel P Lawrence,Leslie A Holland,Mohamed T Nouri,Renaud Travadon,Ara Abramians,Themis J Michailides,Florent P Trouillas
Cytospora species are destructive canker and dieback pathogens of woody hosts in natural and agroecosystems around the world. In this genus, molecular identification has been limited due to the paucity of multi-locus sequence typing studies and the lack of sequence data from type specimens in public repositories, stalling robust phylogenetic reconstructions. In most cases a morphological species concept
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A revision of Salispina, its placement in a new family, Salispinaceae (Rhipidiales), and description of a fourth species, S. hoi sp. nov. IMA Fungus (IF 3.636) Pub Date : 2019-01-10 Reuel M Bennett,Mark Kevin Devanadera,Gina R Dedeles
The genus Salispina was recently described for saprotrophic estuarine oomycetes with aculeolate or spiny sporangia. The genus currently contains three species, S. intermedia, S. lobata, and S. spinosa, the latter two previously included in Halophytophthora. During a survey of mangrove-inhabiting oomycetes in the Philippines, an isolate of Salispina (USTCMS 1611), was obtained from a decaying mangrove
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Comparative genomics of Botryosphaeria dothidea and B. kuwatsukai, causal agents of apple ring rot, reveals both species expansion of pathogenicity-related genes and variations in virulence gene content during speciation. IMA Fungus (IF 3.636) Pub Date : 2019-01-10 Bo Wang,Xiaofei Liang,Mark L Gleason,Rong Zhang,Guangyu Sun
Ring rot, one of the most destructive diseases of apple worldwide, is caused primarily by Botryosphaeria dothidea and B. kuwatsukai. Here, we sequenced the genomes of B. dothidea strain PG45 (44.3 Mb with 5.12 % repeat rate) and B. kuwatsukai epitype strain PG2 (48.0 Mb with 13.02 % repeat rate), and conducted a comparative analysis of these two genomes, as well as other sequenced fungal genomes, in
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The MSDIN family in amanitin-producing mushrooms and evolution of the prolyl oligopeptidase genes. IMA Fungus (IF 3.636) Pub Date : 2019-01-10 Hong Luo,Qing Cai,Yunjiao Lüli,Xuan Li,Rohita Sinha,Heather E Hallen-Adams,Zhu L Yang
The biosynthetic pathway for amanitins and related cyclic peptides in deadly Amanita (Amanitaceae) mushrooms represents the first known ribosomal cyclic peptide pathway in the Fungi. Amanitins are found outside of the genus in distantly related agarics Galerina (Strophariaceae) and Lepiota (Agaricaceae). A long-standing question in the field persists: why is this pathway present in these phylogenetically
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Sequence-based nomenclature: a reply to Thines et al. and Zamora et al. and provisions for an amended proposal "from the floor" to allow DNA sequences as types of names. IMA Fungus (IF 3.636) Pub Date : 2018-07-19 Robert Lücking,Paul M Kirk,David L Hawksworth
We reply to two recently published, multi-authored opinion papers by opponents of sequence-based nomenclature, namely Zamora et al. (IMA Fungus9: 167-175,2018) and Thines et al. (IMA Fungus9: 177-183, 2018). While we agree with some of the principal arguments brought forward by these authors, we address misconceptions and demonstrate that some of the presumed evidence presented in these papers has
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Considerations and consequences of allowing DNA sequence data as types of fungal taxa. IMA Fungus (IF 3.636) Pub Date : 2018-07-19 Juan Carlos Zamora,Måns Svensson,Roland Kirschner,Ibai Olariaga,Svengunnar Ryman,Luis Alberto Parra,József Geml,Anna Rosling,Slavomír Adamčík,Teuvo Ahti,M Catherine Aime,A Martyn Ainsworth,László Albert,Edgardo Albertó,Alberto Altés García,Dmitry Ageev,Reinhard Agerer,Begoña Aguirre-Hudson,Joe Ammirati,Harry Andersson,Claudio Angelini,Vladimír Antonín,Takayuki Aoki,André Aptroot,Didier Argaud,Blanca
Nomenclatural type definitions are one of the most important concepts in biological nomenclature. Being physical objects that can be re-studied by other researchers, types permanently link taxonomy (an artificial agreement to classify biological diversity) with nomenclature (an artificial agreement to name biological diversity). Two proposals to amend the International Code of Nomenclature for algae
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IMA Genome-F 9: Draft genome sequence of Annulohypoxylon stygium, Aspergillus mulundensis, Berkeleyomyces basicola (syn. Thielaviopsis basicola), Ceratocystis smalleyi, two Cercospora beticola strains, Coleophoma cylindrospora, Fusarium fracticaudum, Phialophora cf. hyalina, and Morchella septimelata. IMA Fungus (IF 3.636) Pub Date : 2018-07-19 Brenda D Wingfield,Gerald F Bills,Yang Dong,Wenli Huang,Wilma J Nel,Benedicta S Swalarsk-Parry,Niloofar Vaghefi,P Markus Wilken,Zhiqiang An,Z Wilhelm de Beer,Lieschen De Vos,Li Chen,Tuan A Duong,Yun Gao,Almuth Hammerbacher,Julie R Kikkert,Yan Li,Huiying Li,Kuan Li,Qiang Li,Xingzhong Liu,Xiao Ma,Kershney Naidoo,Sarah J Pethybridge,Jingzu Sun,Emma T Steenkamp,Magriet A van der Nest,Stephanie van Wyk
Draft genomes of the species Annulohypoxylon stygium, Aspergillus mulundensis, Berkeleyomyces basicola (syn. Thielaviopsis basicola), Ceratocystis smalleyi, two Cercospora beticola strains, Coleophoma cylindrospora, Fusarium fracticaudum, Phialophora cf. hyalina and Morchella septimelata are presented. Both mating types (MAT1-1 and MAT1-2) of Cercospora beticola are included. Two strains of Coleophoma
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Ten reasons why a sequence-based nomenclature is not useful for fungi anytime soon. IMA Fungus (IF 3.636) Pub Date : 2018-07-19 Marco Thines,Pedro W Crous,M Catherine Aime,Takayuki Aoki,Lei Cai,Kevin D Hyde,Andrew N Miller,Ning Zhang,Marc Stadler
The large number of species still to be discovered in fungi, together with an exponentially growing number of environmental sequences that cannot be linked to known taxa, has fuelled the idea that it might be necessary to formally name fungi on the basis of sequence data only. Here we object to this idea due to several shortcomings of the approach, ranging from concerns regarding reproducibility and
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Formal description of sequence-based voucherless Fungi: promises and pitfalls, and how to resolve them. IMA Fungus (IF 3.636) Pub Date : 2018-07-19 Robert Lücking,David L Hawksworth
There is urgent need for a formal nomenclature of sequence-based, voucherless Fungi, given that environmental sequencing has accumulated more than one billion fungal ITS reads in the Sequence Read Archive, about 1,000 times as many as fungal ITS sequences in GenBank. These unnamed Fungi could help to bridge the gap between 115,000 to 140,000 currently accepted and 2.2 to 3.8 million predicted species
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Panama, a hot spot for Hermatomyces (Hermatomycetaceae, Pleosporales) with five new species, and a critical synopsis of the genus. IMA Fungus (IF 3.636) Pub Date : 2018-07-19 Ondřej Koukol,Gregorio Delgado,Tina A Hofmann,Meike Piepenbring
Five new species belonging to Hermatomyces (Hermatomycetaceae, Pleosporales) are described based on morphological investigations of specimens collected on rotten twigs and stems of various plants in Panama as well as phylogenetic analyses of sequence data of nuclear ribosomal and protein coding genes (EF1-α, RPB2, β-TUB). The new species are described as: Hermatomyces bifurcatus, H. constrictus, H
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NGS barcode sequencing in taxonomy and diagnostics, an application in "Candida" pathogenic yeasts with a metagenomic perspective. IMA Fungus (IF 3.636) Pub Date : 2018-07-19 Claudia Colabella,Laura Corte,Luca Roscini,Matteo Bassetti,Carlo Tascini,Joseph C Mellor,Wieland Meyer,Vincent Robert,Duong Vu,Gianluigi Cardinali
Species identification of yeasts and other Fungi is currently carried out with Sanger sequences of selected molecular markers, mainly from the ribosomal DNA operon, characterized by hundreds of tandem repeats of the 18S, ITS1, 5.8S, ITS2 and LSU loci. The ITS region has been recently proposed as a primary barcode marker making this region the most used one in taxonomy, phylogeny and diagnostics. The
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Competing sexual and asexual generic names in Pucciniomycotina and Ustilaginomycotina (Basidiomycota) and recommendations for use. IMA Fungus (IF 3.636) Pub Date : 2018-07-19 M Catherine Aime,Lisa A Castlebury,Mehrdad Abbasi,Dominik Begerow,Reinhard Berndt,Roland Kirschner,Ludmila Marvanová,Yoshitaka Ono,Mahajabeen Padamsee,Markus Scholler,Marco Thines,Amy Y Rossman
With the change to one scientific name for pleomorphic fungi, generic names typified by sexual and asexual morphs have been evaluated to recommend which name to use when two names represent the same genus and thus compete for use. In this paper, generic names in Pucciniomycotina and Ustilaginomycotina are evaluated based on their type species to determine which names are synonyms. Twenty-one sets of
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Multiple independent origins for a subtelomeric locus associated with growth rate in Fusarium circinatum. IMA Fungus (IF 3.636) Pub Date : 2018-07-19 Stephanie Van Wyk,Brenda D Wingfield,Lieschen De Vos,Quentin C Santana,Nicolaas A Van der Merwe,Emma T Steenkamp
Fusarium is a diverse assemblage that includes a large number of species of considerable medical and agricultural importance. Not surprisingly, whole genome sequences for many Fusarium species have been published or are in the process of being determined, the availability of which is invaluable for deciphering the genetic basis of key phenotypic traits. Here we investigated the distribution, genic
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Ustilago species causing leaf-stripe smut revisited. IMA Fungus (IF 3.636) Pub Date : 2018-07-19 Julia Kruse,Wolfgang Dietrich,Horst Zimmermann,Friedemann Klenke,Udo Richter,Heidrun Richter,Marco Thines
Leaf-stripe smuts on grasses are a highly polyphyletic group within Ustilaginomycotina, occurring in three genera, Tilletia, Urocystis, and Ustilago. Currently more than 12 Ustilago species inciting stripe smuts are recognised. The majority belong to the Ustilago striiformis-complex, with about 30 different taxa described from 165 different plant species. This study aims to assess whether host distinct-lineages
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Mitochondrial introgression and interspecies recombination in the Fusarium fujikuroi species complex. IMA Fungus (IF 3.636) Pub Date : 2018-07-19 Gerda Fourie,Nicolaas A Van der Merwe,Brenda D Wingfield,Mesfin Bogale,Michael J Wingfield,Emma T Steenkamp
The Fusarium fujikuroi species complex (FFSC) is an economically important monophyletic lineage in the genus Fusarium. Incongruence observed among mitochondrial gene trees, as well as the multiple non-orthologous copies of the internal transcribed spacer region of the ribosomal RNA genes, suggests that the origin and history of this complex likely involved interspecies gene flow. Based on this hypothesis
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Karyotype evolution in Fusarium. IMA Fungus (IF 3.636) Pub Date : 2018-07-19 Cees Waalwijk,Masatoki Taga,Song-Lin Zheng,Robert H Proctor,Martha M Vaughan,Kerry O'Donnell
The germ tube burst method (GTBM) was employed to examine karyotypes of 33 Fusarium species representative of 11 species complexes that span the phylogenetic breadth of the genus. The karyotypes revealed that the nucleolar organizing region (NOR), which includes the ribosomal rDNA region, was telomeric in the species where it was discernible. Variable karyotypes were detected in eight species due to
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Fungal networks and orchid distribution: new insights from above- and below-ground analyses of fungal communities. IMA Fungus (IF 3.636) Pub Date : 2018-07-19 Lorenzo Pecoraro,Tancredi Caruso,Lei Cai,Vijai Kumar Gupta,Zhong-Jian Liu
Orchids are critically dependent on fungi for seedling establishment and growth, so the distribution and diversity of orchids might depend on the associated fungal communities. We characterised the communities associated with eight orchid species in three Mediterranean protected areas, using a combination of above-ground analyses of sporophores and below-ground molecular analyses of orchid root samples
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IMA Genome-F 8: Draft genome of Cercospora zeina, Fusarium pininemorale, Hawksworthiomyces lignivorus, Huntiella decipiens and Ophiostoma ips. IMA Fungus (IF 3.636) Pub Date : 2017-12-16 Brenda D Wingfield,Dave K Berger,Emma T Steenkamp,Hye-Jin Lim,Tuan A Duong,Burton H Bluhm,Z Wilhelm de Beer,Lieschen De Vos,G Fourie,Kershney Naidoo,Nicky Olivier,Yao-Cheng Lin,Yves Van de Peer,Fourie Joubert,Bridget G Crampton,Velushka Swart,Nicole Soal,Catherine Tatham,Magriet A van der Nest,Nicolaas A van der Merwe,Stephanie van Wyk,P Markus Wilken,Michael J Wingfield
The genomes of Cercospora zeina, Fusarium pininemorale, Hawksworthiomyces lignivorus, Huntiella decipiens, and Ophiostoma ips are presented in this genome announcement. Three of these genomes are from plant pathogens and otherwise economically important fungal species. Fusarium pininemorale and H. decipiens are not known to cause significant disease but are closely related to species of economic importance
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An expanded phylogeny for the genus Phytophthora. IMA Fungus (IF 3.636) Pub Date : 2017-12-16 Xiao Yang,Brett M Tyler,Chuanxue Hong
A comprehensive phylogeny representing 142 described and 43 provisionally named Phytophthora species is reported here for this rapidly expanding genus. This phylogeny features signature sequences of 114 ex-types and numerous authentic isolates that were designated as representative isolates by the originators of the respective species. Multiple new subclades were assigned in clades 2, 6, 7, and 9.
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A phylogenetically-based nomenclature for Cordycipitaceae (Hypocreales). IMA Fungus (IF 3.636) Pub Date : 2017-12-16 Ryan M Kepler,J Jennifer Luangsa-Ard,Nigel L Hywel-Jones,C Alisha Quandt,Gi-Ho Sung,Stephen A Rehner,M Catherine Aime,Terry W Henkel,Tatiana Sanjuan,Rasoul Zare,Mingjun Chen,Zhengzhi Li,Amy Y Rossman,Joseph W Spatafora,Bhushan Shrestha
The ending of dual nomenclatural systems for pleomorphic fungi in 2011 requires the reconciliation of competing names, ideally linked through culture based or molecular methods. The phylogenetic systematics of Hypocreales and its many genera have received extensive study in the last two decades, however resolution of competing names in Cordycipitaceae has not yet been addressed. Here we present a molecular
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A new family and genus in Dothideales for Aureobasidium-like species isolated from house dust. IMA Fungus (IF 3.636) Pub Date : 2017-12-16 Zoë Humphries,Keith A Seifert,Yuuri Hirooka,Cobus M Visagie
An international survey of house dust collected from eleven countries using a modified dilution-to-extinction method yielded 7904 isolates. Of these, six strains morphologically resembled the asexual morphs of Aureobasidium and Hormonema (sexual morphs ?Sydowia), but were phylogenetically distinct. A 28S rDNA phylogeny resolved strains as a distinct clade in Dothideales with families Aureobasidiaceae
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New species of Auritella (Inocybaceae) from Cameroon, with a worldwide key to the known species. IMA Fungus (IF 3.636) Pub Date : 2017-12-16 P Brandon Matheny,Terry W Henkel,Olivier Séné,Hailee B Korotkin,Bryn T M Dentinger,M Catherine Aime
Two new species in the genus Auritella (Inocybaceae) are described as new from tropical rainforest in Cameroon. Descriptions, photographs, line drawings, and a worldwide taxonomic key to the described species of Auritella are presented. Phylogenetic analysis of 28S rDNA and rpb2 nucleotide sequence data suggests at least five phylogenetic species that can be ascribed to Auritella occur in the region
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Calonectria species isolated from Eucalyptus plantations and nurseries in South China. IMA Fungus (IF 3.636) Pub Date : 2017-12-16 JieQiong Li,Michael J Wingfield,QianLi Liu,Irene Barnes,Jolanda Roux,Lorenzo Lombard,Pedro W Crous,ShuaiFei Chen
Diseases caused by species of Calonectria (Ca.) represent a serious threat to the growth and sustainability of Eucalyptus plantations in China. Symptoms caused by these fungi mainly include leaf blight on trees in plantations and rotting of stems and leaves in nurseries. Extensive surveys have recently been conducted where Calonectria species were collected in Eucalyptus plantations and nurseries in
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Multigene phylogeny of Endogonales, an early diverging lineage of fungi associated with plants. IMA Fungus (IF 3.636) Pub Date : 2017-12-16 Alessandro Desirò,William R Rimington,Alison Jacob,Natalie Vande Pol,Matthew E Smith,James M Trappe,Martin I Bidartondo,Gregory Bonito
Endogonales is a lineage of early diverging fungi within Mucoromycota. Many species in this order produce small sporophores ("sporocarps") containing a large number of zygospores, and many species form symbioses with plants. However, due to limited collections, subtle morphological differentiation, difficulties in growing these organisms in vitro, and idiosyncrasies in their rDNA that make PCR amplification
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