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13 pages, 4793 KiB

Open AccessArticle

An Integrative Study of Mycobiome in Different Habitats from a High Arctic Region: Diversity, Distribution, and Functional Role

by Xiufei Chen, Dong Yan, Liyan Yu and Tao Zhang

J. Fungi 2023, 9(4), 437; https://doi.org/10.3390/jof9040437 - 3 Apr 2023

Cited by 4 | Viewed by 1905

Abstract

In the Arctic ecosystems, fungi are crucial for interactions between soil and plants, the cycling of nutrients, and the transport of carbon. To date, no studies have been conducted to thoroughly examine the mycobiome and its functional role in various habitats of the [...] Read more.

In the Arctic ecosystems, fungi are crucial for interactions between soil and plants, the cycling of nutrients, and the transport of carbon. To date, no studies have been conducted to thoroughly examine the mycobiome and its functional role in various habitats of the High Arctic region. The aim was to unravel the mycobiome in the nine habitats (i.e., soil, lichen, vascular plant, moss, freshwater, seawater, marine sediment, dung, and marine alga) in the Ny-Ålesund Region (Svalbard, High Arctic) using a high-throughput sequencing approach. A total of 10,419 ASVs were detected. Among them, 7535 ASVs were assigned to unidentified phyla, while the remaining 2884 ASVs were assigned to 11 phyla, 33 classes, 81 orders, 151 families, 278 genera, and 261 species that were known. The distribution of the mycobiome was driven by habitat specificity, indicating that habitat filtering is a crucial factor influencing the fungal assemblages at a local scale in this High Arctic region. Six growth forms and 19 fungal guilds were found. The ecological guild (e.g., lichenized, ectomycorrhizal) and growth form (e.g., yeast, thallus photosynthetic) varied significantly among various habitats. In addition, the occurrence of 31 fungal species that are considered to be potential pathogens was determined. These results will increase our understanding of fungal diversity and its functional significance in this distinctive High Arctic area and thereby establish the groundwork for prediction about how the mycobiome will alter in various environments as a result of anticipated climate change. Full article

(This article belongs to the Special Issue Fungal Diversity in Various Environments)

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14 pages, 5115 KiB

Open AccessArticle

Development and Determinants of Topsoil Bacterial and Fungal Communities of Afforestation by Aerial Sowing in Tengger Desert, China

by Weiyu Chen, Tengfei Yu, Chenguang Zhao, Baofeng Li, Yanyan Qin, Huiying Li, Haojie Tang, Junliang Liu and Xiaoyou Zhang

J. Fungi 2023, 9(4), 399; https://doi.org/10.3390/jof9040399 - 24 Mar 2023

Cited by 9 | Viewed by 1578

Abstract

It was previously reported that afforestation in the desert can help improve soil texture, carbon accumulation, and nutrient status. However, the effects of afforestation on soil microbial composition, diversity, and microbial interactions with soil physicochemical properties have been rarely evaluated quantitatively. Using the [...] Read more.

It was previously reported that afforestation in the desert can help improve soil texture, carbon accumulation, and nutrient status. However, the effects of afforestation on soil microbial composition, diversity, and microbial interactions with soil physicochemical properties have been rarely evaluated quantitatively. Using the method of space-for-time substitutions, we assessed the development and determinants of topsoil bacterial and fungal communities over nearly 40 years of successive afforestation by aerial sowing in Tengger Desert, China. The results showed that afforestation by aerial sowing comprised a considerable proportion of Chloroflexi and Acidobacteria in the bacterial community in addition to the ubiquitous phyla found in desert but had fewer effects on the dominant phyla of the fungal community. At the phylum level, the bacterial community was clearly clustered into two groups. However, it was difficult to differentiate the constituents of the fungal community based on principal coordinate analysis. The richness of the bacterial and fungal communities was significantly higher after five years than at zero years and three years. Additionally, the bacterial community varied parabolically and reached its largest size at twenty years, while the fungal community increased exponentially. Soil physicochemical properties were found to have divergent effects on the abundance and diversity of bacterial and fungal communities, among which salt- and carbon-associated properties (e.g., electrical conductivity, calcium, magnesium, total carbon, and organic carbon) were closely related with the abundance of bacterial-dominant phyla and the diversity of bacteria and fungi, but nutrient-associated properties (e.g., total phosphorus and available phosphorus) were not. The results indicate that afforestation through the salt secretions of plants leaves and carbon inputs from litter promote the development of topsoil bacterial and fungal communities in the desert. Full article

(This article belongs to the Special Issue Fungal Diversity in Various Environments)

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40 pages, 31272 KiB

Open AccessArticle

Multi-Gene Phylogeny and Taxonomy of the Wood-Rotting Fungal Genus Phlebia sensu lato (Polyporales, Basidiomycota)

by Changlin Zhao, Menghan Qu, Ruoxia Huang and Samantha C. Karunarathna

J. Fungi 2023, 9(3), 320; https://doi.org/10.3390/jof9030320 - 5 Mar 2023

Cited by 37 | Viewed by 3144

Abstract

Phlebia s.l. (Polyporales, Basidiomycota) accommodates numerous species of wood-inhabiting fungi within the phylum Basidiomycota. The present study employs the morphological and phylogenetic approaches to revise the generic and species classification of Phlebia s.l. and surveys the species diversity. The phylogenetic analyses were performed [...] Read more.

Phlebia s.l. (Polyporales, Basidiomycota) accommodates numerous species of wood-inhabiting fungi within the phylum Basidiomycota. The present study employs the morphological and phylogenetic approaches to revise the generic and species classification of Phlebia s.l. and surveys the species diversity. The phylogenetic analyses were performed using multiple gene regions viz. the internal transcribed spacer (ITS), the large subunit nuclear ribosomal RNA gene (nLSU), the translation elongation factor 1-α (tef1), the small subunit of mitochondrial rRNA gene (mtSSU), the glyceraldehyde 3-phosphate dehydrogenase (GAPDH), RNA polymerase II largest subunit (rpb1), and RNA polymerase II second largest subunit (rpb2). We overall recognize twenty genera of Phlebia s.l., including three new genera viz. Ceriporiopsoides, Phlebicolorata, and Pseudophlebia, seven new species viz. Crustodontia rhododendri, Hydnophlebia fissurata, Luteoporia straminea, Merulius sinensis, Mycoaciella brunneospina, Phlebia niveomarginata, and P. poroides and seventeen new combinations viz. Ceriporiopsoides guidella, C. lagerheimii, Hydnophlebia acanthocystis, H. capsica, H. fimbriata, Merulius fuscotuberculatus, M. nantahaliensis, M. tomentopileatus, Mycoacia tuberculata, Mycoaciella uda, Phlebicolorata alboaurantia, Ph. brevispora, Ph. pseudoplacenta, Ph. rosea, Pseudophlebia lindtneri, Ps. semisupina, and Ps. setulosa. Descriptions, illustrations, phylogenetic trees to show the placements, and notes of new taxa are provided. Full article

(This article belongs to the Special Issue Fungal Diversity in Various Environments)

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22 pages, 6156 KiB

Open AccessArticle

Diversity of Cellulolytic Microorganisms Associated with the Subterranean Termite Reticulitermes grassei

by Juan Carbonero-Pacheco, José Aguilar, María Carmen Raya, Antonio Trapero, Miquel Gaju-Ricart and Carlos Agustí-Brisach

J. Fungi 2023, 9(3), 294; https://doi.org/10.3390/jof9030294 - 24 Feb 2023

Cited by 6 | Viewed by 2374

Abstract

Reticulitermes grassei is a subterranean termite species that forages on woody structures of the Iberian Peninsula, and is often a building and crops pest. A total of 23 microorganisms associated with the activity of R. grassei were isolated from colonized ecosystems in southern [...] Read more.

Reticulitermes grassei is a subterranean termite species that forages on woody structures of the Iberian Peninsula, and is often a building and crops pest. A total of 23 microorganisms associated with the activity of R. grassei were isolated from colonized ecosystems in southern Spain. They were morphologically and molecularly characterized, with fungi being the most prevalent ones. The fungi showed high values of optimum growth temperature, suggesting that they could be able to survive and develop in warm regions. Their cellulolytic activity was tested in carboxymethylcellulose (CMC) agar, concluding that all fungal isolates produce cellulases, and the enzymatic index (EI) was revealed in CMC agar with Gram’s iodine solution, with Penicillium citrinum showing the highest EI and Trichoderma longibrachiatum the highest mycelial growth rate on CMC. A preliminary microorganism dispersion assay was carried out with the termites, concluding that these insects may have a positive influence on fungal dispersion and the subsequent colonization of new substrates. Our study suggests that fungi associated with R. grassei may potentially be of interest in biotechnological fields such as biofuel production and the food industry. Full article

(This article belongs to the Special Issue Fungal Diversity in Various Environments)

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12 pages, 1102 KiB

Open AccessArticle

What Are the Effects of Moso Bamboo Expansion into Japanese Cedar on Arbuscular Mycorrhizal Fungi: Altering the Community Composition Rather than the Diversity

by Guiwu Zou, Binsheng Wu, Baodong Chen, Yaying Yang, Yan Feng, Jiahui Huang, Yuanqiu Liu, Philip J. Murray and Wei Liu

J. Fungi 2023, 9(2), 273; https://doi.org/10.3390/jof9020273 - 18 Feb 2023

Cited by 3 | Viewed by 2048

Abstract

The unbridled expansion of moso bamboo (Phyllostachys edulis) occurs throughout the world and has a series of consequences. However, the effect of bamboo expansion on arbuscular mycorrhizal fungi (AMF) is still poorly understood. We assessed the changes in the AMF community [...] Read more.

The unbridled expansion of moso bamboo (Phyllostachys edulis) occurs throughout the world and has a series of consequences. However, the effect of bamboo expansion on arbuscular mycorrhizal fungi (AMF) is still poorly understood. We assessed the changes in the AMF community during bamboo expansion into Japanese cedar (Cryptomeria japonica) forests by analyzing AMF in three forest types—Japanese cedar (JC), bamboo-cedar mixed (BC) and moso bamboo (MB)—using 454 pyrosequencing technology. We found that the AMF community composition differed significantly among forest types. The relative abundance of Glomerales decreased from 74.0% in JC to 61.8% in BC and 42.5% in MB, whereas the relative abundance of Rhizophagus increased from 24.9% in JC to 35.9% in BC and 56.7% in MB. Further analysis showed that soil characteristics explained only 19.2% of the AMF community variation among forest types. Hence, vegetation is presumably the main driver of the alteration of the AMF community. The α diversity of AMF was similar between JC and MB, although it was higher in BC. Overall, this research sheds more light on AMF community dynamics during moso bamboo expansion. Our results highlight that the consequences of bamboo expansion in monoculture forests differ from those in mixed forests. Full article

(This article belongs to the Special Issue Fungal Diversity in Various Environments)

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23 pages, 13078 KiB

Open AccessArticle

Four New Wood-Inhabiting Fungal Species of Peniophoraceae (Russulales, Basidiomycota) from the Yunnan-Guizhou Plateau, China

by Lei Zou, Xiaolu Zhang, Yinglian Deng and Changlin Zhao

J. Fungi 2022, 8(11), 1227; https://doi.org/10.3390/jof8111227 - 21 Nov 2022

Cited by 8 | Viewed by 2084

Abstract

Four new fungi of the family Peniophoraceae, viz., Peniophora roseoalba, P. yunnanensis, Vararia daweishanensis, and V. fragilis are herein proposed, based on a combination of morphological features and molecular evidence. Peniophora roseoalba is characterized by resupinate, membranaceous basidiomata with a [...] Read more.

Four new fungi of the family Peniophoraceae, viz., Peniophora roseoalba, P. yunnanensis, Vararia daweishanensis, and V. fragilis are herein proposed, based on a combination of morphological features and molecular evidence. Peniophora roseoalba is characterized by resupinate, membranaceous basidiomata with a rose pink to pale pinkish grey hymenophore, a monomitic hyphal system with clamped generative hyphae, the presence of cystidia, and ellipsoid basidiospores. However, P. yunnanensis differs in being tuberculate, with a pale cream to cream hymenial surface, small lamprocystidia (18–29 × 4.5–7 µm), and subcylindrical basidiospores. Vararia daweishanensis is characterized by resupinate, membranous basidiomata with a pale yellowish hymenial surface, a dimitic hyphal system with clamped generative hyphae, strongly dextrinoid dichohyphae, and allantoid basidiospores; V. fragilis is characterized by resupinate, brittle basidiomata, with a buff to ochraceous hymenial surface and small ellipsoid basidiospores measuring 3.5–5.5 × 2.5–3.5 µm. Sequences of the ITS and nLSU rRNA markers of the studied samples were generated, and phylogenetic analyses were performed with the maximum likelihood, maximum parsimony, and Bayesian inference methods. The nLSU analysis revealed that the four new species can be clustered into the family Peniophoraceae (Russulales), in the genera Peniophora and Vararia. Further studies based on the ITS dataset showed that four fungi of the family Peniophoraceae were new to science. Full article

(This article belongs to the Special Issue Fungal Diversity in Various Environments)

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17 pages, 2609 KiB

Open AccessArticle

Distribution of Kazachstania Yeast in Thai Traditional Fermented Fish (Plaa-Som) in Northeastern Thailand

by Sukrita Punyauppa-path, Pongpat Kiatprasert, Prasongsom Punyauppa-path, Pongsak Rattanachaikunsopon, Pannida Khunnamwong, Savitree Limtong and Nantana Srisuk

J. Fungi 2022, 8(10), 1029; https://doi.org/10.3390/jof8101029 - 28 Sep 2022

Cited by 7 | Viewed by 2487

Abstract

Thai traditional fermented fish products (Plaa-som) from four provinces (Ubon Ratchathani, Surin, Sisaket, and Khon Kaen) in the northeast part of Thailand were collected and analyzed to determine their salt content, total acidity, and pH. Yeasts in all samples were isolated and identified [...] Read more.

Thai traditional fermented fish products (Plaa-som) from four provinces (Ubon Ratchathani, Surin, Sisaket, and Khon Kaen) in the northeast part of Thailand were collected and analyzed to determine their salt content, total acidity, and pH. Yeasts in all samples were isolated and identified to the genus and species level based on sequence analysis of the D1/D2 of the large subunit (LSU) rRNA gene and the internal transcribed spacer (ITS) region. The results revealed that the salt content, total acidity, and pH values are in the range of 2.01–6.9%, 0.62–1.9%, and 4.4–6.57%, respectively. Moreover, 35 strains of yeast were isolated and identified as eight genera, namely Candida, Diutina, Filobasidium, Kazachstania, Pichia, Saccharomyces, Torulaspora, and Yarrowia with 17 species. The ascosporogenous yeast, Kazachstania, was the most dominant genus found and was widely distributed among the fermented food samples. In addition, a new strain of yeast, Kazachstania surinensis, was also discovered in Plaa-som samples. Thus, this study is the first to report the presence and wide distribution of these yeasts in fish fermentation products. Full article

(This article belongs to the Special Issue Fungal Diversity in Various Environments)

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Review

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26 pages, 2167 KiB

Open AccessReview

The Human Mycobiome: Colonization, Composition and the Role in Health and Disease

by Paulina Belvoncikova, Petra Splichalova, Petra Videnska and Roman Gardlik

J. Fungi 2022, 8(10), 1046; https://doi.org/10.3390/jof8101046 - 4 Oct 2022

Cited by 46 | Viewed by 7496

Abstract

The mycobiome is the fungal component of the human microbial ecosystem that represents only a small part of this environment but plays an essential role in maintaining homeostasis. Colonization by fungi begins immediately after birth. The initial mycobiome is influenced by the gestational [...] Read more.

The mycobiome is the fungal component of the human microbial ecosystem that represents only a small part of this environment but plays an essential role in maintaining homeostasis. Colonization by fungi begins immediately after birth. The initial mycobiome is influenced by the gestational age of a newborn, birth weight, delivery method and feeding method. During a human’s life, the composition of the mycobiome is further influenced by a large number of endogenous and exogenous factors. The most important factors are diet, body weight, age, sex and antibiotic and antifungal therapy. The human mycobiome inhabits the oral cavity, gastrointestinal tract, respiratory tract, urogenital tract and skin. Its composition can influence the gut–brain axis through immune and non-immune mediated crosstalk systems. It also interacts with other commensals of the ecosystem through synergistic and antagonistic relationships. Moreover, colonization of the gut by opportunistic fungal pathogens in immunocompromised individuals can lead to clinically relevant disease states. Thus, the mycobiome represents an essential part of the microbiome associated with a variety of physiological and pathological processes. This review summarizes the current knowledge on the composition of the mycobiome in specific sites of the human body and its role in health and disease. Full article

(This article belongs to the Special Issue Fungal Diversity in Various Environments)

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