Special Issue "Fungal Diversity and Systematics in the Digital Era"

A special issue of Journal of Fungi (ISSN 2309-608X). This special issue belongs to the section "Fungal Evolution, Biodiversity and Systematics".

Deadline for manuscript submissions: 31 December 2023 | Viewed by 7964

Special Issue Editors

Facultad de Ciencias Biológicas y Agropecuarias, Peñuela, Universidad Veracruzana, Amatlán de los Reyes 94945, Mexico
Interests: fungal diversity; molecular systematics; taxonomy and phylogenetics; mushroom cultivation
Thailand National Science and Technology Development Agency, Pathum Thani, Thailand
Interests: diversity and biogeography of basidiomycota; metabarcoding; fungal ecology; ectomycorrhiza
School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu 611731, China
Interests: ascomycetes taxonomy; fungal evolution; plant pathology; phylogenomics
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

As one of the important branches of the tree of life, fungi play a vital role in various ecosystems. They are essential for nutrient cycling and have beneficial interaction with many groups of organisms. Adversely, they can cause serious human, animal, and plant diseases. Although fungi have biotechnological potential, however, they remain relatively understudied. Approximately less than 5% of the estimated two to nearly four million species are formally described. Nowadays, the number of published new species has greatly increased. Species delimitation and classification depend to a large extent on the adoption of molecular techniques. Therefore, more studies on the biodiversity and systematics of fungi would offer us a better understanding of the diversity, ecology, and biogeography of fungi, which can be applied to the future conservation of fungi and ecological niches. 

This special issue entitled "Fungal diversity and systematics in the digital era", aims to highlight current research on fungal diversity and systematics in all groups of Fungi. Both reviews and research articles are welcome.

Dr. Jie Chen
Dr. Komsit Wisitrassameewong
Prof. Dr. Sajeewa Maharachchikumbura
Guest Editors

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Journal of Fungi is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2600 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Published Papers (6 papers)

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Research

24 pages, 3887 KiB  
Article
Morphology and Molecular Phylogeny Reveal Five New Species of Laccaria (Hydnangiaceae, Agaricales) from Southern China
J. Fungi 2023, 9(12), 1179; https://doi.org/10.3390/jof9121179 - 08 Dec 2023
Viewed by 210
Abstract
The genus Laccaria is a type of cosmopolitan and ecologically important fungal group. Members can form ectomycorrhizal associations with numerous trees, and some species are common edible fungi in local markets. Although some new species from China are recently published, the species diversity [...] Read more.
The genus Laccaria is a type of cosmopolitan and ecologically important fungal group. Members can form ectomycorrhizal associations with numerous trees, and some species are common edible fungi in local markets. Although some new species from China are recently published, the species diversity of Laccaria is still unclear in China. In this study, some samples of Laccaria were collected from southern China, and morphological characteristics and phylogenetic analyses based on the multilocus dataset of ITS-LSU-tef1-rpb2 confirmed five new species. Laccaria miniata, L. nanlingensis and L. neovinaceoavellanea were collected from subtropical broad-leaved forests, and L. rufobrunnea and L. umbilicata were collected from subtropical mixed forests of southwest China. Full descriptions, illustrations, comparisons with similar species and phylogenetic analysis are provided. Full article
(This article belongs to the Special Issue Fungal Diversity and Systematics in the Digital Era)
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18 pages, 7398 KiB  
Article
Compensatory Base Changes in ITS2 Secondary Structure Alignment, Modelling, and Molecular Phylogeny: An Integrated Approach to Improve Species Delimitation in Tulasnella (Basidiomycota)
J. Fungi 2023, 9(9), 894; https://doi.org/10.3390/jof9090894 - 31 Aug 2023
Viewed by 536
Abstract
Background: The delimitation of species of Tulasnella has been extensively studied, mainly at the morphological (sexual and asexual states) and molecular levels—showing ambiguity between them. An integrative species concept that includes characteristics such as molecular, ecology, morphology, and other information is crucial for [...] Read more.
Background: The delimitation of species of Tulasnella has been extensively studied, mainly at the morphological (sexual and asexual states) and molecular levels—showing ambiguity between them. An integrative species concept that includes characteristics such as molecular, ecology, morphology, and other information is crucial for species delimitation in complex groups such as Tulasnella. Objectives: The aim of this study is to test evolutionary relationships using a combination of alignment-based and alignment-free distance matrices as an alternative molecular tool to traditional methods, and to consider the secondary structures and CBCs from ITS2 (internal transcribed spacer) sequences for species delimitation in Tulasnella. Methodology: Three phylogenetic approaches were plotted: (i) alignment-based, (ii) alignment-free, and (iii) a combination of both distance matrices using the DISTATIS and pvclust libraries from an R package. Finally, the secondary structure consensus was modeled by Mfold, and a CBC analysis was obtained to complement the species delimitation using 4Sale. Results and Conclusions: The phylogenetic tree results showed delimited monophyletic clades in Tulasnella spp., where all 142 Tulasnella sequences were divided into two main clades A and B and assigned to seven species (T. asymmetrica, T. andina, T. eichleriana ECU6, T. eichleriana ECU4 T. pinicola, T. violea), supported by bootstrap values from 72% to 100%. From the 2D secondary structure alignment, three types of consensus models with helices and loops were obtained. Thus, T. albida belongs to type I; T. eichleriana, T. tomaculum, and T. violea belong to type II; and T. asymmetrica, T. andina, T. pinicola, and T. spp. (GER) belong to type III; each type contains four to six domains, with nine CBCs among these that corroborate different species. Full article
(This article belongs to the Special Issue Fungal Diversity and Systematics in the Digital Era)
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32 pages, 16662 KiB  
Article
Four Novel Species and Two New Records of Boletes from India
J. Fungi 2023, 9(7), 754; https://doi.org/10.3390/jof9070754 - 17 Jul 2023
Cited by 1 | Viewed by 797
Abstract
Repeated macrofungal explorations, followed by thorough examination of species through morphology and molecular phylogeny, have made it clear that European and American names of wild mushrooms were inadvertently misapplied quite often to Asian lookalikes by mycologists/taxonomists in the past. Therefore, in order to [...] Read more.
Repeated macrofungal explorations, followed by thorough examination of species through morphology and molecular phylogeny, have made it clear that European and American names of wild mushrooms were inadvertently misapplied quite often to Asian lookalikes by mycologists/taxonomists in the past. Therefore, in order to reveal this mushroom treasure, in recent years, taxonomical research on wild mushrooms has been intensified in Asian countries, including India, by undertaking a combined approach of morpho-taxonomy and multigene molecular phylogeny. Boletoid mushrooms (Boletaceae) are no exception. While working on boletoid mushrooms of the Indian Himalayas, authors recently came across six interesting species of boletoid mushrooms. In the present communication, four novel species, namely Leccinellum binderi, Cyanoboletus paurianus, Xerocomus uttarakhandae, and Xerocomellus himalayanus, are established based on morphology and molecular phylogenetic estimations. Moreover, Cyanoboletus macroporus and Xerocomus fraternus are also reported here for the first time in India. Full article
(This article belongs to the Special Issue Fungal Diversity and Systematics in the Digital Era)
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35 pages, 10520 KiB  
Article
Phylogeny, Taxonomy and Evolutionary Trade-Offs in Reproductive Traits of Gomphoid Fungi (Gomphaceae, Gomphales)
J. Fungi 2023, 9(6), 626; https://doi.org/10.3390/jof9060626 - 29 May 2023
Viewed by 911
Abstract
Although functional ecology is a well-established field, our understanding of the evolutionary and ecological significance of the reproductive traits in macrofungi is still limited. Here, we reconstructed a phylogeny tree of gomphoid fungi in the narrower sense, including the species of the genera [...] Read more.
Although functional ecology is a well-established field, our understanding of the evolutionary and ecological significance of the reproductive traits in macrofungi is still limited. Here, we reconstructed a phylogeny tree of gomphoid fungi in the narrower sense, including the species of the genera Gomphus and Turbinellus and used it to uncover the evolution of reproductive traits. Our analyses indicated that fungal fruit bodies and spores did not enlarge at a steady rate over time. Early gomphoid fungi essentially maintained their fruit body size, spore size and spore shape through the Mesozoic. In the Cenozoic, gomphoid fungi acquired significantly larger and more spherical spores by simultaneously expanding in length and width, with the fruit body size first decreasing and then enlarging. We argue that these trade-offs were driven by the effect of biological extinction and the dramatic climate changes of the Cenozoic. Gomphoid fungi initially increased in spore size and fruit body number as extinction survivors filled vacant niches. Both fruit bodies and spores eventually became larger as ecosystems saturated and competition intensified. One new species of Gomphus and nine new species of Turbinellus are described. Full article
(This article belongs to the Special Issue Fungal Diversity and Systematics in the Digital Era)
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22 pages, 110107 KiB  
Article
Taxonomy and Phylogeny of Cystolepiota (Agaricaceae, Agaricales): New Species, New Combinations and Notes on the C. seminuda Complex
J. Fungi 2023, 9(5), 537; https://doi.org/10.3390/jof9050537 - 30 Apr 2023
Viewed by 2207
Abstract
Species of Cystolepiota are known as diminutive lepiotaceous fungi with a worldwide distribution. Previous studies revealed that Cystolepiota is not monophyletic and preliminary DNA sequence data from recent collections suggested that several new species exist. Based on multi-locus DNA sequence data (the nuc [...] Read more.
Species of Cystolepiota are known as diminutive lepiotaceous fungi with a worldwide distribution. Previous studies revealed that Cystolepiota is not monophyletic and preliminary DNA sequence data from recent collections suggested that several new species exist. Based on multi-locus DNA sequence data (the nuc rDNA internal transcribed spacer region ITS1-5.8S-ITS2, ITS; the D1–D2 domains of nuc 28S rDNA, LSU; the most variable region of the second-largest subunit of RNA polymerase II, rpb2 and a portion of the translation–elongation factor 1-α. tef1), C. sect. Pulverolepiota forms a distinct clade separating from Cystolepiota. Therefore, the genus Pulverolepiota was resurrected and two combinations, P. oliveirae and P. petasiformis were proposed. With the integration of morphological characteristics, multi-locus phylogeny, and information on geography and habitat, two new species, viz. C. pseudoseminuda and C. pyramidosquamulosa, are described and C. seminuda was revealed to be a species complex containing at least three species, viz. C. seminuda, C. pseudoseminuda, and Melanophyllum eryei. In addition, C. seminuda was re-circumscribed and neo-typified based on recent collections. Full article
(This article belongs to the Special Issue Fungal Diversity and Systematics in the Digital Era)
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41 pages, 8161 KiB  
Article
Taxonomy and Phylogeny of Fungi Associated with Mangifera indica from Yunnan, China
J. Fungi 2022, 8(12), 1249; https://doi.org/10.3390/jof8121249 - 26 Nov 2022
Cited by 6 | Viewed by 2137
Abstract
During investigations of saprobic fungi associated with mango (Mangifera indica) in Baoshan and Honghe of Yunnan Province (China), fungal taxa belonging to the orders Botryosphaeriales, Calosphaeriales, Chaetothyriales, Diaporthales, and Xylariales were recorded. Morphological examinations coupled with phylogenetic analyses of multigene sequences [...] Read more.
During investigations of saprobic fungi associated with mango (Mangifera indica) in Baoshan and Honghe of Yunnan Province (China), fungal taxa belonging to the orders Botryosphaeriales, Calosphaeriales, Chaetothyriales, Diaporthales, and Xylariales were recorded. Morphological examinations coupled with phylogenetic analyses of multigene sequences (ITS, LSU, SSU, tef1-α, rpb1, rpb2, β-tubulin and CAL) were used to identify the fungal taxa. A new genus viz. Mangifericola, four new species viz. Cyphellophora hongheensis, Diaporthe hongheensis, Hypoxylon hongheensis, and Mangifericola hongheensis, four new host and geographical records viz. Aplosporella artocarpi, Hypomontagnella monticulosa, Paraeutypella citricola and Pleurostoma ootheca, and two new collections of Lasiodiplodia are reported. Full article
(This article belongs to the Special Issue Fungal Diversity and Systematics in the Digital Era)
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