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1.
Int J Mol Sci ; 25(17)2024 Sep 04.
Article in English | MEDLINE | ID: mdl-39273542

ABSTRACT

Suillus is one of the most important genera of ectomycorrhizal fungi. As a model for studying host specificity, its molecular fragments and nuclear genome have been analyzed. However, its mitochondrial genome has not yet been reported. In this study, we assembled five mitogenomes of Suillus and analyzed and compared their basic characteristics. Owing to the large number of introns as well as intergenic regions, the mitogenomic lengths of species of Suillus were greater than those of other species of Boletales. We identified two main patterns of gene order arrangement in the members of the order Boletales. The Ka/Ks values of 15 protein-coding genes were <1 for the mitochondrial genes of 39 Boletales species, indicating their conserved evolution. Phylogenetic trees, reconstructed using the mitogenomes, indicated that the genus Suillus was monophyletic. Phylogenetic results based on the internal transcribed spacer region and mitogenome were used to confirm the distribution of Suillus placidus in China. The results showed that the mitogenome was superior in distinguishing species compared with a single molecular fragment. This is the first study to investigate the mitogenome of Suillus, enriching the mitogenome information and providing basic data for the phylogeny, resource conservation, and genetic diversity of this genus.


Subject(s)
Gene Order , Genome, Mitochondrial , Phylogeny , Basidiomycota/genetics , Basidiomycota/classification , Evolution, Molecular
2.
Sci Rep ; 14(1): 21136, 2024 09 10.
Article in English | MEDLINE | ID: mdl-39256414

ABSTRACT

The identification and classification of various phenotypic features of Auricularia cornea fruit bodies are crucial for quality grading and breeding efforts. The phenotypic features of Auricularia cornea fruit bodies encompass size, number, shape, color, pigmentation, and damage. These phenotypic features are distributed across various views of the fruit bodies, making the task of achieving both rapid and accurate identification and classification challenging. This paper proposes a novel multi-view multi-label fast network that integrates two different views of the Auricularia cornea fruiting body, enabling rapid and precise identification and classification of six phenotypic features simultaneously. Initially, a multi-view feature extraction model based on partial convolution was constructed. This model incorporates channel attention mechanisms to achieve rapid phenotypic feature extraction of the Auricularia cornea fruiting body. Subsequently, an efficient multi-task classifier was designed, based on class-specific residual attention, to ensure accurate classification of phenotypic features. Finally, task weights were dynamically adjusted based on heteroscedastic uncertainty, reducing the training complexity of the multi-task classification. The proposed network achieved a classification accuracy of 94.66% and an inference speed of 11.9 ms on an image dataset of dried Auricularia cornea fruiting bodies with three views and six labels. The results demonstrate that the proposed network can efficiently and accurately identify and classify all phenotypic features of Auricularia cornea.


Subject(s)
Phenotype , Basidiomycota/classification , Basidiomycota/physiology , Fruiting Bodies, Fungal , Image Processing, Computer-Assisted/methods , Algorithms , Neural Networks, Computer
3.
Mycologia ; 116(5): 792-820, 2024.
Article in English | MEDLINE | ID: mdl-39121366

ABSTRACT

Pseudohydnum, commonly known as cat's tongue mushrooms, is a monophyletic assemblage within Auriculariales, which encompasses species with gelatinous basidiomata, spathulate, flabellate, or shell-shaped pileus, hydnoid hymenophore, globose to ellipsoidal basidiospores, and longitudinally cruciate-septate basidia. According to the available literature, 16 species have been described in Pseudohydnum, mostly represented in temperate-boreal forests of the Northern Hemisphere. However, the limited morphological, molecular, and ecological information, especially from the Southern Hemisphere ecosystems, does not presently allow a reliable assessment of its taxonomic boundaries nor provide a complete picture of the species diversity in the genus. In an ongoing effort to examine specimens collected in dense and mixed ombrophilous forest fragments (Atlantic Rainforest domain) from Southeastern and Southern Brazil, additional taxa assigned to Pseudohydnum were identified. Four new species are recognized based mostly on characters of the pileus surface, stipe, hymenium, and basidiospores. Molecular phylogenetic analyses based on nuc rDNA internal transcribed spacer region ITS1-5.8S-ITS2 (ITS barcode), partial nuc rDNA 28S, and partial RNA polymerase II largest subunit (RPB1) sequences supported the description of these new taxa. Here, we propose Pseudohydnum brasiliense, P. brunneovelutinum, P. cupulisnymphae, and P. viridimontanum as new species. Morphological descriptions, line drawings, habitat photos, and comparisons with closely related taxa are provided. A dichotomous key for identification of currently known Southern Hemisphere Pseudohydnum species is presented.


Subject(s)
Agaricales , DNA, Fungal , DNA, Ribosomal Spacer , Phylogeny , Spores, Fungal , DNA, Fungal/genetics , Brazil , DNA, Ribosomal Spacer/genetics , Spores, Fungal/cytology , Spores, Fungal/classification , Agaricales/classification , Agaricales/genetics , Agaricales/isolation & purification , Agaricales/cytology , Sequence Analysis, DNA , DNA, Ribosomal/genetics , Basidiomycota/classification , Basidiomycota/genetics , Basidiomycota/cytology , Basidiomycota/isolation & purification , RNA, Ribosomal, 28S/genetics , Fruiting Bodies, Fungal/cytology , Forests
4.
Int J Med Mushrooms ; 26(10): 9-18, 2024.
Article in English | MEDLINE | ID: mdl-39171628

ABSTRACT

Antifungal and antibacterial activities of crude extracts of Phellinus extensus, Ph. gilvus, Ph. pachyphloeus, Ph. senex and Coltricia fragilissima were investigated on eleven species of bacteria and three fungal human pathogens. The minimum inhibitory concentration (MIC) was determined by the microdilution method. The results of this study reveal that for the eleven strains of bacteria tested, including Bacillus subtilis, Enterococcus faecalis, Staphylococcus aureus, S. epidermidis, Enterobacter cloacae, Klebsiella aerogenes, Mycobacterium smegmatis, Proteus vulgaris, Proteus mirabilis and Escherichia choli, the MIC of the crude extract of the four species of Phellinus as well as that of C. fragilissima ranged from 3.13 to 12.50 mg/mL. For the three strains of fungi tested including Candida albicans, Aspergillus ochraceus and A. fumigetus, the MIC of the crude extracts of the same four species of Phellinus as well as that of C. fragilissima ranged from 0.39 to 3.13 mg/mL. These data reveal that the antimicrobial activity of crude extracts of Phellinus and Coltricia species is stronger on pathogenic fungi than on bacteria. C. fragilissima being of the same family as Phellinus and having recorded the values of MIC eminently close to those of the latter may potentially be used for medicinal purposes like the investigated Phellinus species. Being highly represented in the sub-Saharan regions and owing to the above-mentioned results, these species could now be considered as part of the non-exhaustive list of medicinal mushrooms in these regions and may constitute a new source of natural molecules that may be more active than synthetic products against certain fungal and bacterial borne diseases.


Subject(s)
Anti-Bacterial Agents , Antifungal Agents , Bacteria , Microbial Sensitivity Tests , Cameroon , Anti-Bacterial Agents/pharmacology , Anti-Bacterial Agents/chemistry , Antifungal Agents/pharmacology , Antifungal Agents/isolation & purification , Antifungal Agents/chemistry , Bacteria/drug effects , Bacteria/classification , Democratic Republic of the Congo , Fungi/drug effects , Basidiomycota/chemistry , Basidiomycota/classification , Complex Mixtures/pharmacology , Complex Mixtures/chemistry , Humans
5.
mBio ; 15(8): e0142324, 2024 Aug 14.
Article in English | MEDLINE | ID: mdl-39012152

ABSTRACT

In terrestrial forested ecosystems, fungi may interact with trees in at least three distinct ways: (i) associated with roots as symbionts; (ii) as pathogens in roots, trunks, leaves, flowers, and fruits; or (iii) decomposing dead tree tissues on soil or even on dead tissues in living trees. Distinguishing the latter two nutrition modes is rather difficult in Hymenochaetaceae (Basidiomycota) species. Herein, we have used an integrative approach of comparative genomics, stable isotopes, host tree association, and bioclimatic data to investigate the lifestyle ecology of the scarcely known neotropical genus Phellinotus, focusing on the unique species Phellinotus piptadeniae. This species is strongly associated with living Piptadenia gonoacantha (Fabaceae) trees in the Atlantic Forest domain on a relatively high precipitation gradient. Phylogenomics resolved P. piptadeniae in a clade that also includes both plant pathogens and typical wood saprotrophs. Furthermore, both genome-predicted Carbohydrate-Active Enzymes (CAZy) and stable isotopes (δ13C and δ15N) revealed a rather flexible lifestyle for the species. Altogether, our findings suggest that P. piptadeniae has been undergoing a pathotrophic specialization in a particular tree species while maintaining all the metabolic repertoire of a wood saprothroph. IMPORTANCE: This is the first genomic description for Phellinotus piptadeniae. This basidiomycete is found across a broad range of climates and ecosystems in South America, including regions threatened by extensive agriculture. This fungus is also relevant considering its pathotrophic-saprotrophic association with Piptadenia goanocantha, which we began to understand with these new results that locate this species among biotrophic and necrotrophic fungi.


Subject(s)
Genomics , Phylogeny , Basidiomycota/genetics , Basidiomycota/classification , Fabaceae/microbiology , Trees/microbiology , Plant Diseases/microbiology , Carbon Isotopes/analysis , Genome, Fungal , Nitrogen Isotopes/analysis , Forests
6.
Mycologia ; 116(5): 729-743, 2024.
Article in English | MEDLINE | ID: mdl-38976842

ABSTRACT

Two new species, Chalciporus rubrostipitatus and Tylopilus purpureus, are proposed from India based on morphological and molecular data. Chalciporus rubrostipitatus is characterized by basidiomata having purplish red to reddish pileus with subtomentose to rugose surface, whitish pileal context, round to angular pores, and reddish orange to red stipe, which is pruinose toward the apex. Tylopilus purpureus produces basidiomata having a purple to vinaceous purple pileus, whitish pore surface that changes to reddish brown on bruising, and a minutely pubescent purplish stipe. Morphological descriptions and comparisons, taxonomic keys, and results of phylogenetic analyses using sequences of the ITS (internal transcribed spacer), 28S (28S rRNA), and RPB2 (second largest subunit of RNA polymerase II) gene regions are presented.


Subject(s)
DNA, Fungal , DNA, Ribosomal Spacer , Phylogeny , RNA Polymerase II , India , DNA, Fungal/genetics , DNA, Ribosomal Spacer/genetics , RNA Polymerase II/genetics , RNA, Ribosomal, 28S/genetics , Sequence Analysis, DNA , Spores, Fungal/cytology , Spores, Fungal/classification , Molecular Sequence Data , Basidiomycota/classification , Basidiomycota/genetics , Basidiomycota/isolation & purification
7.
Appl Microbiol Biotechnol ; 108(1): 423, 2024 Jul 22.
Article in English | MEDLINE | ID: mdl-39037499

ABSTRACT

The Chinese medicinal fungi "Sanghuang" have been long recognized for their significant and valued medicinal properties, as documented in ancient medical literature. However, in traditional folk medicine, various macrofungi sharing similar appearance, habitat, and therapeutic effects with Sanghuang were erroneously used. These Sanghuang-like fungi mainly belong to the Porodaedalea, Phellinus, and Inonotus genera within the Hymenochaetaceae family. Despite the establishment of the Sanghuangporus genus and the identification of multiple species, the emerging taxonomic references based on morphological, ITS, and mycelial structural features have been inadequate to differentiate Sanghuangporus and Sanghuang-like fungi. To address this limitation, this study presents the first comparative and phylogenetic analysis of Sanghuang-related fungi based on mitogenomes. Our results show that Sanghuangporus species show marked convergence in mitochondrial genomic features and form a distinct monophyletic group based on phylogenetic analyses of five datasets. These results not only deepen our understanding of Sanghuang-like fungi but also offer novel insights into their mitochondrial composition and phylogeny, thereby providing new research tools for distinguishing members of the Sanghuangporus genus. KEY POINTS: • Sanghuangporus, Inonotus, and Porodaedalea are monophyly in sanghuang-like species. • Mitogenome-based analysis exhibits high resolution in sanghuang-like genus. • The mitogenomes provide strong evidence for reclassifying Phellinus gilvus S12 as Sanghuangporus vaninii.


Subject(s)
Phylogeny , Genome, Mitochondrial , Basidiomycota/genetics , Basidiomycota/classification , DNA, Fungal/genetics , Medicine, Chinese Traditional , Sequence Analysis, DNA
8.
Mycologia ; 116(4): 601-620, 2024.
Article in English | MEDLINE | ID: mdl-38847769

ABSTRACT

Three novel species of the genus Leucocoprinus, named Lc. cinnamomeodiscus, Lc. dahranwalanus, and Lc. iqbalii, are described from unexplored regions of southern Punjab, Pakistan, based on comprehensive analyses of morphoanatomical characteristics and molecular phylogenetic data. We provide illustrations of freshly collected basidiomata and detailed line drawings highlighting key anatomical features. The molecular phylogenetic analyses, which are based on the internal transcribed spacer (ITS) region and combined ITS-28S sequences, consistently position these newly described species within the genus Leucocoprinus. Additionally, this study also introduces new taxonomic combinations for previously reported Leucoagaricus species.


Subject(s)
DNA, Fungal , DNA, Ribosomal Spacer , Phylogeny , Pakistan , DNA, Fungal/genetics , DNA, Ribosomal Spacer/genetics , Sequence Analysis, DNA , Spores, Fungal/cytology , Basidiomycota/genetics , Basidiomycota/classification , RNA, Ribosomal, 28S/genetics , Biodiversity
9.
World J Microbiol Biotechnol ; 40(8): 251, 2024 Jun 24.
Article in English | MEDLINE | ID: mdl-38910228

ABSTRACT

Genetic diversity in Sclerotium rolfsii is useful for understanding its population structure, identifying different mycelial compatibility groups (MCGs), and developing targeted strategies for disease management in affected crops. In our study, a comprehensive genetic analysis was conducted on 50 isolates of S. rolfsii, collected from various geographic regions and host plants. Two specific genes, TEF1α and RPB2, were utilized to assess the genetic diversity and relationships among these isolates. Notably, out of 1225 pairings examined, only 154 exhibited a compatible reaction, while the majority displayed antagonistic reactions, resulting in the formation of a barrier zone. The isolates were grouped into 10 distinct MCGs. These MCGs were further characterized using genetic sequencing. TEF1α sequences distinguished the isolates into 17 distinct clusters, and RPB2 sequences classified them into 20 clusters. Some MCGs shared identical gene sequences within each gene, while others exhibited unique sequences. Intriguingly, when both TEF1α and RPB2 sequences were combined, all 10 MCGs were effectively differentiated, even those that appeared identical with single-gene analysis. This combined approach provided a comprehensive understanding of the genetic diversity and relationships among the S. rolfsii isolates, allowing for precise discrimination between different MCGs. The results shed light on the population structure and genetic variability within this plant pathogenic fungus, providing valuable insights for disease management and control strategies. This study highlights the significance of comprehending the varied virulence characteristics within S. rolfsii isolates, categorizing them into specific virulence groups based on disease severity index (DSI) values. The association with MCGs provides additional insights into the genetic underpinnings of virulence in this pathogen. Furthermore, the identification of geographical patterns in virulence implies the influence of region-specific factors, with potential implications for disease control and crop protection strategies.Please confirm if the author names are presented accurately and in the correct sequence (given name, middle name/initial, family name). Author 1 Given name: [G. M. Sandeep] Last name [Kumar]. Author 2 Given name: [Praveen Kumar] Last name [Singh]. Also, kindly confirm the details in the metadata are correct.I confirm that the given names are accurate and presented in the correct sequence.


Subject(s)
Basidiomycota , Genetic Variation , Multilocus Sequence Typing , Phylogeny , Plant Diseases , Plant Diseases/microbiology , Basidiomycota/genetics , Basidiomycota/isolation & purification , Basidiomycota/classification , Mycelium/genetics , Fungal Proteins/genetics , DNA, Fungal/genetics , Crops, Agricultural/microbiology
10.
J Microbiol Biotechnol ; 34(6): 1249-1259, 2024 Jun 28.
Article in English | MEDLINE | ID: mdl-38938004

ABSTRACT

It remains to be determined whether there is a geographical distribution pattern and phylogenetic signals for the Mycena strains with seed germination of the orchid plant Gastrodia elata. This study analyzed the community composition and phylogenetics of 72 Mycena strains associated with G. elata varieties (G. elata. f. glauca and G. elata. f. viridis) using multiple gene fragments (ITS+nLSU+SSU). We found that (1) these diverse Mycena phylogenetically belong to the Basidiospore amyloid group. (2) There is a phylogenetic signal of Mycena for germination of G. elata. Those strains phylogenetically close to M. abramsii, M. polygramma, and an unclassified Mycena had significantly higher germination rates than those to M. citrinomarginata. (3) The Mycena distribution depends on geographic site and G. elata variety. Both unclassified Mycena group 1 and the M. abramsii group were dominant for the two varieties of G. elata; in contrast, the M. citrinomarginata group was dominant in G. elata f. glauca but absent in G. elata f. viridis. Our results indicate that the community composition of numerous Mycena resources in the Zhaotong area varies by geographical location and G. elata variety. Importantly, our results also indicate that Mycena's phylogenetic status is correlated with its germination rate.


Subject(s)
Gastrodia , Germination , Phylogeny , Gastrodia/microbiology , Gastrodia/genetics , DNA, Fungal/genetics , Seeds/microbiology , Seeds/growth & development , Basidiomycota/genetics , Basidiomycota/classification , Basidiomycota/physiology
11.
Mol Ecol Resour ; 24(6): e13983, 2024 Aug.
Article in English | MEDLINE | ID: mdl-38840549

ABSTRACT

In the face of evolving agricultural practices and climate change, tools towards an integrated biovigilance platform to combat crop diseases, spore sampling, DNA diagnostics and predictive trajectory modelling were optimized. These tools revealed microbial dynamics and were validated by monitoring cereal rust fungal pathogens affecting wheat, oats, barley and rye across four growing seasons (2015-2018) in British Columbia and during the 2018 season in southern Alberta. ITS2 metabarcoding revealed disparity in aeromycobiota diversity and compositional structure across the Canadian Rocky Mountains, suggesting a barrier effect on air flow and pathogen dispersal. A novel bioinformatics classifier and curated cereal rust fungal ITS2 database, corroborated by real-time PCR, enhanced the precision of cereal rust fungal species identification. Random Forest modelling identified crop and land-use diversification as well as atmospheric pressure and moisture as key factors in rust distribution. As a valuable addition to explain observed differences and patterns in rust fungus distribution, trajectory HYSPLIT modelling tracked rust fungal urediniospores' northeastward dispersal from the Pacific Northwest towards southern British Columbia and Alberta, indicating multiple potential origins. Our Canadian case study exemplifies the power of an advanced biovigilance toolbox towards developing an early-warning system for farmers to detect and mitigate impending disease outbreaks.


Subject(s)
Air Microbiology , Basidiomycota , Plant Diseases , Plant Diseases/microbiology , Basidiomycota/genetics , Basidiomycota/classification , Basidiomycota/isolation & purification , British Columbia , Alberta , Edible Grain/microbiology , Mycobiome/genetics , Computational Biology/methods , DNA Barcoding, Taxonomic/methods , Canada
12.
Fungal Biol ; 128(4): 1815-1826, 2024 Jun.
Article in English | MEDLINE | ID: mdl-38876534

ABSTRACT

Endophytic fungi, pivotal in facilitating plant co-evolution, significantly enhance plant growth, stress resistance, and environmental adaptability. Despite their importance, the spatial distribution of stem endophytic fungi (SEF) within host plants remains poorly characterized. Here, we employed high-throughput sequencing to conduct a comparative analysis of SEF communities in Mussaenda pubescens on a regional scale. Our findings reveal that whole-SEF communities were overwhelmingly dominated by members of the phylum Ascomycota, accounting for 85.9 %, followed by Basidiomycota at 13.9 %, and that alpha diversity within the whole-SEF community of M. pubescens remains relatively consistent across sampling sites. However, significant variation was observed within conditionally abundant taxa (CAT), conditionally rare or abundant taxa (CRAT), and conditionally rare taxa (CRT). Climatic factors emerged as the primary influence on SEF community distribution, followed by spatial distance and stem chemical properties. Neutral community modeling results suggested that both stochastic and deterministic processes play a role in shaping whole-SEF communities, with deterministic processes having a stronger influence on CRT subcommunities. Furthermore, the CRT co-occurrence network exhibited a more complex structure, characterized by higher values of network betweenness and degree relative to CAT and CRAT subcommunities. These findings enhance our understanding of community assembly and ecological interactions between stem fungal endophytes, presenting opportunities for harnessing fungal resources for the benefit of humanity.


Subject(s)
Endophytes , Plant Stems , Endophytes/classification , Endophytes/isolation & purification , Endophytes/genetics , Plant Stems/microbiology , Ascomycota/classification , Ascomycota/genetics , Ascomycota/isolation & purification , Fungi/classification , Fungi/isolation & purification , Fungi/genetics , High-Throughput Nucleotide Sequencing , Basidiomycota/classification , Basidiomycota/genetics , Basidiomycota/isolation & purification , Biodiversity
13.
Braz J Microbiol ; 55(3): 2839-2844, 2024 Sep.
Article in English | MEDLINE | ID: mdl-38743246

ABSTRACT

Hemileia vastatrix, causal agent of coffee leaf rust (CLR), is an aggressive pathogen of coffee plants worldwide. Conventional fungicides play a major role in the suppression of this disease, but a recent shift toward eco-friendly farming practices has occurred and additional novel, effective, and sustainable strategies for CLR control are needed. Naturally occurring fungal antagonists could be well-positioned to meet this demand, but these fungi need to be isolated and tested for efficacy to identify organisms with potential. In this study, a survey of fungi associated with CLR lesions in four districts of Hawai'i Island, HI, USA (Kona, Ka'u, Hamakua, and Hilo) was conducted. Coffee leaves infected with CLR were collected from 22 locations and over 600 lesions were plated on ½ APDA and CTC 4T media. DNA was extracted from purified isolates and the internal transcribed spacer region (ITS) was sequenced and analyzed by BLASTn. In total, 194 isolates comprising 50 taxa were recovered. Several of the genera are known antagonists of CLR or other plant pathogens, including Simplicillium, Akanthomyces, Cladosporium, Fusarium, and Clonostachys. The wide diversity of fungi associated with CLR lesions provide a wealth of possibilities for identifying potential CLR antagonists that could serve as a valuable tool for coffee farmers as part of an integrated pest management plan.


Subject(s)
Coffea , Plant Diseases , Plant Leaves , Coffea/microbiology , Hawaii , Plant Diseases/microbiology , Plant Diseases/prevention & control , Plant Leaves/microbiology , Fungi/classification , Fungi/isolation & purification , Fungi/genetics , Fungi/drug effects , Basidiomycota/isolation & purification , Basidiomycota/genetics , Basidiomycota/classification , Antibiosis
14.
Mycologia ; 116(4): 509-535, 2024.
Article in English | MEDLINE | ID: mdl-38742888

ABSTRACT

South Africa has an indigenous rust (Pucciniales) funga of approximately 460 species. This funga was sampled with species from as many genera as possible. The nuclear ribosomal large subunit (28S) region was amplified from samples representing 110 indigenous species, as well as the small subunit (18S) region and the cytochrome c oxidase subunit 3 (CO3) in some cases, and these were used in phylogenetic analyses. One new species is described, 12 new combinations made, six names reinstated, and two life history connections made. The life histories of this funga were summarized; it is dominated by species with contracted life histories. The majority of species are autoecious, with a small proportion being heteroecious. Of the autoecious species, many will likely be homothallic with no spermagonia. A shortened life history with homothallism allows for a single basidiospore infection to initiate a local population buildup under the prevailing unpredictable climatic conditions. Suggestions are made as to the possible origin of this funga based on the development of the modern South African flora. It is postulated that the rusts of South Africa are of relatively recent origin, consisting of three groups. Firstly, there is an African tropical element with members of the Mikronegerineae (Hemileia), the Sphaerophragmiaceae (Puccorchidium, Sphaerophragmium), and certain Uredinineae (Stomatisora). Their immediate ancestors likely occurred in the tropical forests of Africa during the Paleogene. Secondly, there is a pantropical element including the Raveneliaceae (e.g., Diorchidium, Maravalia, Ravenelia sensu lato, Uropyxis). This likely diversified during the Neogene, when the mimosoids became the dominant trees of the developing savannas. Thirdly, the Pucciniaceae invaded Africa as this continent pushed northward closing the Tethys Sea. They diversified with the development of the savannas as these become the dominant habitat in most of Africa, and are by far the largest component of the South African rust funga.


Subject(s)
Basidiomycota , DNA, Fungal , Phylogeny , South Africa , Basidiomycota/genetics , Basidiomycota/classification , DNA, Fungal/genetics , Sequence Analysis, DNA , RNA, Ribosomal, 28S/genetics , DNA, Ribosomal/genetics , Electron Transport Complex IV/genetics , RNA, Ribosomal, 18S/genetics
15.
J Microbiol ; 62(6): 429-447, 2024 Jun.
Article in English | MEDLINE | ID: mdl-38753127

ABSTRACT

Hymenochaetales Oberw. is an order classified in Basidiomycota of Fungi, and species in this order display notable diversity. They exhibit various fruiting body shapes, including clavarioid, effused-reflexed, and resupinate basidiomes. Few mycorrhizal species have been reported in Hymenochaetales, but wood-decaying species dominate the order. Hymenochaetaceae Imazeki & Toki and Schizoporaceae Jülich are the most species-rich families within Hymenochaetales, and most species in the Republic of Korea belong to these two families. As such, current taxonomic classification and nomenclature are not reflected upon species in the remaining Hymenochaetales families. For this study, a multifaceted morphological and multigenetic marker-based phylogenetic investigation was conducted to, firstly, comprehensively identify understudied Hymenochaetales specimens in Korea and, secondly, reflect the updates on the species classification. Five genetic markers were assessed for the phylogenetic analysis: nuclear small subunit ribosomal DNA (nSSU), internal transcribed spacer (ITS), nuclear large subunit ribosomal DNA (nLSU), RNA polymerase II subunit 2 gene (RPB2), and translation elongation factor 1 gene (TEF1). The results from phylogenetic analysis supported 18 species classified under eight families (excluding Hymenochaetaceae and Schizoporaceae) in Korea. Species formerly placed in Rickenellaceae and Trichaptum sensu lato have been systematically revised based on recent taxonomic reconstructions. In addition, our findings revealed one new species, Rickenella umbelliformis, and identified five formerly nationally unreported species classified under five understudied families. Our findings contribute to a better understanding of Hymenochaetales diversity and highlight the need for continued research.


Subject(s)
Basidiomycota , DNA, Fungal , Phylogeny , Republic of Korea , DNA, Fungal/genetics , Basidiomycota/genetics , Basidiomycota/classification , DNA, Ribosomal Spacer/genetics , Sequence Analysis, DNA , DNA, Ribosomal/genetics , Peptide Elongation Factor 1/genetics
16.
Environ Microbiol Rep ; 16(3): e13213, 2024 Jun.
Article in English | MEDLINE | ID: mdl-38738810

ABSTRACT

Since a significant proportion of plant matter is consumed by herbivores, a necessary adaptation for many phyllosphere microbes could be to survive through the guts of herbivores. While many studies explore the gut microbiome of herbivores by surveying the microbiome in their frass, few studies compare the phyllosphere microbiome to the gut microbiome of herbivores. High-throughput metabarcode sequencing was used to track the fungal community from milkweed (Asclepias spp.) leaves to monarch caterpillar frass. The most commonly identified fungal taxa that dominated the caterpillar frass after the consumption of leaves were yeasts, mostly belonging to the Basidiomycota phylum. While most fungal communities underwent significant bottlenecks and some yeast taxa increased in relative abundance, a consistent directional change in community structure was not identified from leaf to caterpillar frass. These results suggest that some phyllosphere fungi, especially diverse yeasts, can survive herbivory, but whether herbivory is a key stage of their life cycle remains uncertain. For exploring phyllosphere fungi and the potential coprophilous lifestyles of endophytic and epiphytic fungi, methods that target yeast and Basidiomycota fungi are recommended.


Subject(s)
Asclepias , Fungi , Herbivory , Plant Leaves , Animals , Plant Leaves/microbiology , Asclepias/microbiology , Fungi/classification , Fungi/genetics , Fungi/isolation & purification , Fungi/physiology , Yeasts/classification , Yeasts/isolation & purification , Yeasts/genetics , Mycobiome , Basidiomycota/classification , Basidiomycota/genetics , Basidiomycota/physiology , Basidiomycota/isolation & purification , Gastrointestinal Microbiome , Larva/microbiology , Moths/microbiology
17.
Sci Rep ; 14(1): 10601, 2024 05 08.
Article in English | MEDLINE | ID: mdl-38719921

ABSTRACT

A plant parasite associated with the white haze disease in apples, the Basidiomycota Gjaerumia minor, has been found in most samples of the global bathypelagic ocean. An analysis of environmental 18S rDNA sequences on 12 vertical profiles of the Malaspina 2010 expedition shows that the relative abundance of this cultured species increases with depth while its distribution is remarkably different between the deep waters of the Pacific and Atlantic oceans, being present in higher concentrations in the former. This is evident from sequence analysis and a microscopic survey with a species-specific newly designed TSA-FISH probe. Several hints point to the hypothesis that G. minor is transported to the deep ocean attached to particles, and the absence of G. minor in bathypelagic Atlantic waters could then be explained by the absence of this organism in surface waters of the equatorial Atlantic. The good correlation of G. minor biomass with Apparent Oxygen Utilization, recalcitrant carbon and free-living prokaryotic biomass in South Pacific waters, together with the identification of the observed cells as yeasts and not as resting spores (teliospores), point to the possibility that once arrived at deep layers this species keeps on growing and thriving.


Subject(s)
Basidiomycota , Pacific Ocean , Basidiomycota/genetics , Basidiomycota/isolation & purification , Basidiomycota/classification , RNA, Ribosomal, 18S/genetics , Seawater/microbiology , Phylogeny , Atlantic Ocean , DNA, Ribosomal/genetics , DNA, Fungal/genetics
18.
Int J Med Mushrooms ; 26(5): 43-57, 2024.
Article in English | MEDLINE | ID: mdl-38780422

ABSTRACT

Wild resources of Auricularia cornea (A. polytricha) are abundant in China, and genetic diversity and genetic relationships analysis of A. cornea can provide basis for germplasm resource utilization and innovation and molecular marker-assisted breeding. In this study, 22 Auricularia strains collected were identified as A. cornea based on ITS sequence analysis, and its genetic diversity was examined by ISSR and SRAP markers. The results showed that a total of 415 bands were amplified by 11 selected ISSR primers, with an average amplification of 37.73 bands per primer, and the mean values of Ne, I, and H were 1.302, 0.368, and 0.219, respectively. A total of 450 bands were amplified by 10 SRAP primers, with an average of 45 bands per primer, and the average of Ne, I, and H were 1.263, 0.302, and 0.183, respectively. The unweighted pair-group method with arithmetic means analysis based on ISSR-SRAP marker data revealed that the genetic similarity coefficient between the tested strains was 0.73-0.97, and the strains could be divided into five groups at 0.742, which had a certain correlation with regional distribution. The results of PCOA and population structure analysis based on ISSR-SRAP data also produced similar results. These results demonstrate the genetic diversity and distinctness among wild A. cornea and provide a theoretical reference for the classification, breeding, germplasm innovation, utilization, and variety protection of A. cornea resources.


Subject(s)
Basidiomycota , Genetic Variation , China , Basidiomycota/genetics , Basidiomycota/classification , Genetic Markers , Phylogeny , DNA, Fungal/genetics , Microsatellite Repeats , Sequence Analysis, DNA , DNA, Ribosomal Spacer/genetics
19.
Article in English | MEDLINE | ID: mdl-38780584

ABSTRACT

Four yeast strains belonging to the basidiomycetous yeast genus Mrakia were isolated from diverse habitats in the Ny-Ålesund region (Svalbard, High Arctic): two from vascular plants, one from seawater and one from freshwater. Phylogenetic analysis, based on the ITS region and the D1/D2 domain of the 28S rRNA gene, identified these four strains as representing two novel species within the genus Mrakia. The names Mrakia polaris sp. nov. (MycoBank number: MB 852063) and Mrakia amundsenii sp. nov. (MycoBank number: MB 852064) are proposed. These two new species show distinct psychrophilic adaptations, as they exhibit optimal growth at temperatures between 10 and 15°C, while being unable to grow at 25°C. The holotype of M. polaris sp. nov. is CPCC 300345T, and the holotype of M. amundsenii sp. nov. is CPCC 300572T.


Subject(s)
DNA, Fungal , Phylogeny , Seawater , Sequence Analysis, DNA , Arctic Regions , DNA, Fungal/genetics , Seawater/microbiology , Mycological Typing Techniques , Svalbard , RNA, Ribosomal, 28S/genetics , Basidiomycota/genetics , Basidiomycota/classification , Basidiomycota/isolation & purification , Fresh Water/microbiology , Ecosystem , Cold Temperature , Saccharomycetales/classification , Saccharomycetales/genetics , Saccharomycetales/isolation & purification
20.
Sci Rep ; 14(1): 9298, 2024 04 23.
Article in English | MEDLINE | ID: mdl-38654032

ABSTRACT

Agaricales, Russulales and Boletales are dominant orders among the wild mushrooms in Basidiomycota. Boletaceae, one of the major functional elements in terrestrial ecosystem and mostly represented by ectomycorrhizal symbionts of trees in Indian Himalaya and adjoining hills, are extraordinarily diverse and represented by numerous genera and species which are unexplored or poorly known. Therefore, their hidden diversity is yet to be revealed. Extensive macrofungal exploration by the authors to different parts of Himalaya and surroundings, followed by through morphological studies and multigene molecular phylogeny lead to the discovery of five new species of wild mushrooms: Leccinellum bothii sp. nov., Phylloporus himalayanus sp. nov., Phylloporus smithii sp. nov., Porphyrellus uttarakhandae sp. nov., and Retiboletus pseudoater sp. nov. Present communication deals with morphological details coupled with illustrations and phylogenetic inferences. Besides, Leccinellum sinoaurantiacum and Xerocomus rugosellus are also reported for the first time from this country.


Subject(s)
Agaricales , Phylogeny , India , Agaricales/genetics , Agaricales/classification , DNA, Fungal/genetics , Basidiomycota/genetics , Basidiomycota/classification
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