1
|
Probst M, Telagathoti A, Mandolini E, Peintner U. Fungal and bacterial communities and their associations in snow-free and snow covered (sub-)alpine Pinus cembra forest soils. ENVIRONMENTAL MICROBIOME 2024; 19:20. [PMID: 38566162 PMCID: PMC10985912 DOI: 10.1186/s40793-024-00564-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/06/2023] [Accepted: 03/24/2024] [Indexed: 04/04/2024]
Abstract
BACKGROUND In Europe, Pinus cembra forests cover subalpine and alpine areas and they are of high conservational and ecological relevance. These forests experience strong seasonality with alternating snow-free and snow covered periods. Although P. cembra is known for mycorrhization and mycorrhizae usually involve fungi, plants and bacteria, the community compositions of fungi and bacteria and their associations in (sub-)alpine P. cembra forests remain vastly understudied. Here, we studied the fungal and bacterial community compositions in three independent (sub-)alpine P. cembra forests and inferred their microbial associations using marker gene sequencing and network analysis. We asked about the effect of snow cover on microbial compositions and associations. In addition, we propose inferring microbial associations across a range of filtering criteria, based on which we infer well justified, concrete microbial associations with high potential for ecological relevance that are typical for P. cembra forests and depending on snow cover. RESULTS The overall fungal and bacterial community structure was comparable with regards to both forest locations and snow cover. However, occurrence, abundance, and diversity patterns of several microbial taxa typical for P. cembra forests differed among snow-free and snow covered soils, e.g. Russula, Tetracladium and Phenoliphera. Moreover, network properties and microbial associations were influenced by snow cover. Here, we present concrete microbial associations on genus and species level that were repeatedly found across microbial networks, thereby confirming their ecological relevance. Most importantly, ectomycorrhizal fungi, such as Basidioascus, Pseudotomentella and Rhizopogon, as well as saprobic Mortierella changed their bacterial association partners depending on snow cover. CONCLUSION This is the first study researching fungal-bacterial associations across several (sub-)alpine P. cembra forests. The poorly investigated influence of snow cover on soil fungi and bacteria, especially those mycorrhizing P. cembra roots, but also saprobic soil organisms, underlines the relevance of forest seasonality. Our findings highlight that the seasonal impact of snow cover has significant consequences for the ecology of the ecosystem, particularly in relation to mycorrhization and nutrient cycling. It is imperative to consider such effects for a comprehensive understanding of the functioning resilience and responsiveness of an ecosystem.
Collapse
Affiliation(s)
- Maraike Probst
- Department for Microbiology, Universität Innsbruck, Technikerstrasse 25, 6020, Innsbruck, Austria.
| | - Anusha Telagathoti
- Department for Microbiology, Universität Innsbruck, Technikerstrasse 25, 6020, Innsbruck, Austria
| | - Edoardo Mandolini
- Department for Microbiology, Universität Innsbruck, Technikerstrasse 25, 6020, Innsbruck, Austria
| | - Ursula Peintner
- Department for Microbiology, Universität Innsbruck, Technikerstrasse 25, 6020, Innsbruck, Austria
| |
Collapse
|
2
|
Fukuoka H, Yokoi N, Komori A, Makimura K, Sotozono C. Dematiaceous fungal keratitis caused by Cladophialophora boppii - A case report. Am J Ophthalmol Case Rep 2024; 33:102006. [PMID: 38371659 PMCID: PMC10869311 DOI: 10.1016/j.ajoc.2024.102006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2023] [Revised: 12/25/2023] [Accepted: 02/04/2024] [Indexed: 02/20/2024] Open
Abstract
Purpose To report a rare case of dematiaceous fungal keratitis caused by Cladophialophora boppii (C. boppii) in an immunocompromised patient. Observations An 83-year-old male with chronic renal failure was referred to the Department of Ophthalmology, Kyoto Prefectural University of Medicine, Kyoto, Japan due to persistent corneal epithelial defects (PEDs) in his left eye. Initial examination revealed decreased central corneal sensitivity and decreased tear secretion in that eye, both thought to be associated with herpetic keratitis. Permanent punctal-plug surgery combined with therapeutic soft contact lens wear was performed to treat the PED, which initially healed, yet recurred. Follow-up examination revealed a 1.0-mm-diameter black lesion consistent with the PED site, which subsequently increased in size, so treatment with miconazole solution eye drops, natamycin ophthalmic ointment, and systemic itraconazole was initially performed. Since the region of the lesion had progressed to corneal perforation, corneal transplantation surgery under general anesthesia was scheduled, yet the patient refused to undergo surgery. Mycological testing via DNA sequencing of the internal transcribed spacer of ribosomal DNA regions revealed that the isolate or pathogen was C. boppii. Mycotic keratitis caused by C. boppii was found to be resistant to antifungal drugs. Conclusion and importance This is a rare case of fungal keratitis caused by C. boppii in an elderly immunocompromised patient.
Collapse
Affiliation(s)
- Hideki Fukuoka
- Department of Ophthalmology, Kyoto Prefectural University of Medicine, Kyoto, Japan
| | - Norihiko Yokoi
- Department of Ophthalmology, Kyoto Prefectural University of Medicine, Kyoto, Japan
| | - Aya Komori
- Department of Medical Mycology, Teikyo University School of Medicine, Tokyo, Japan
| | - Koichi Makimura
- Department of Medical Mycology, Teikyo University School of Medicine, Tokyo, Japan
| | - Chie Sotozono
- Department of Ophthalmology, Kyoto Prefectural University of Medicine, Kyoto, Japan
| |
Collapse
|
3
|
Fu R, Sun W, Liu B, Sun J, Wu Q, Liu X, Xiang M. Genome and transcriptome reveal lithophilic adaptation of Cladophialophora brunneola, a new rock-inhabiting fungus. Mycology 2024; 14:326-343. [PMID: 38187882 PMCID: PMC10769131 DOI: 10.1080/21501203.2023.2256764] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2023] [Accepted: 09/04/2023] [Indexed: 01/09/2024] Open
Abstract
Rock-inhabiting fungi (RIF) are slow-growing microorganisms that inhabit rocks and exhibit exceptional stress tolerance owing to their thick melanised cell walls. This study reports the identification of a novel rock-inhabiting fungus, Cladophialophora brunneola sp. nov. which was isolated from a karst landform in Guizhou, China, using a combination of morphological and phylogenetic analyses. The genome of C. brunneola was sequenced and assembled, with a total size of approximately 33.8 Mb, encoding 14,168 proteins and yielding an N50 length of 1.88 Mb. C. brunneola possessed a larger proportion of species-specific genes, and phylogenomic analysis positioned it in an early diverged lineage within Chaetothyriales. In comparison to non-RIF, C. brunneola displayed reduction in carbohydrate-active enzyme families (CAZymes) and secondary metabolite biosynthetic gene clusters (BGCs). Transcriptome analysis conducted under PEG-induced drought stress revealed elevated expression levels of genes associated with melanin synthesis pathways, cell wall biosynthesis, and lipid metabolism. This study contributes to our understanding of the genomic evolution and polyextremotolerance exhibited by rock-inhabiting fungi.
Collapse
Affiliation(s)
- Rong Fu
- State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
- College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China
| | - Wei Sun
- State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
| | - Bingjie Liu
- State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
- College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China
| | - Jingzu Sun
- State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
| | - Qi Wu
- State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
| | - Xingzhong Liu
- Department of Microbiology, College of Life Science, Nankai University, Tianjin, China
| | - Meichun Xiang
- State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
- College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China
| |
Collapse
|
4
|
Jara-Ortega P, Ordoñez-Apolo F, Jara-Ortega N, Jara-Crespo F. [Fungal infection by Cladophialophora bantiana and development of cerebral phaeohyphomycosis. A systematic review of 58 case reports]. Rev Neurol 2023; 77:185-196. [PMID: 37807883 PMCID: PMC10831763 DOI: 10.33588/rn.7708.2023145] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2023] [Indexed: 10/10/2023]
Abstract
INTRODUCTION INTRODUCTION Cladophialophora bantiana is a filamentous fungus, known as a dematiaceous fungus because of the presence of melanin. This fungus is of clinical importance because it is neurotropic and causes cerebral phaeohyphomycosis. MATERIAL AND METHODS The available scientific information on the development of cerebral phaeohyphomycosis caused by Cladophialophora bantiana was analysed by selecting articles from the PubMed, Scopus and Google Scholar databases that describe case reports of fungal infection by C. bantiana in adults, taking into account the analysis of the patients' symptomatology, clinical history and neuroanatomical damage, in addition to considering the mortality of the condition. RESULTS India and United States were the countries with most case reports, with 32 and 11 cases respectively. Moreover, in terms of neuroanatomical lesions, the majority of patients suffered mixed lesions (29%) and frontal lobe lesions (22%). In accordance with the patients' condition, the pathology has a mortality rate of 62%. CONCLUSIONS It is concluded that cerebral phaeohyphomycosis has a high mortality rate, there is no standardised treatment and, in most cases, the fungal infection of the brain is mixed and affects several different parts of it. Furthermore, if not diagnosed and treated in time, it can lead to the patients' death.
Collapse
Affiliation(s)
- Paul Jara-Ortega
- Facultad de Ciencias Biológicas. Universidad Central del Ecuador. Quito, EcuadorUniversidad Central del EcuadorUniversidad Central del EcuadorQuitoEcuador
| | - Fernanda Ordoñez-Apolo
- Departamento de Obstetricia. Facultad de Medicina. Universidad Central del Ecuador. Quito, EcuadorUniversidad Central del EcuadorUniversidad Central del EcuadorQuitoEcuador
| | - Nicolas Jara-Ortega
- Kruger School. Universidad Técnica Particular de Loja. Quito, EcuadorUniversidad Técnica Particular de LojaUniversidad Técnica Particular de LojaQuitoEcuador
- Facultad de Psicología. Universidad Técnica Particular de Loja. Quito, EcuadorUniversidad Técnica Particular de LojaUniversidad Técnica Particular de LojaQuitoEcuador
| | - Fabian Jara-Crespo
- Máster en Neuropsicología y Educación. Universidad Internacional de la Rioja. Logroño, EspañaUniversidad Internacional de la RiojaUniversidad Internacional de la RiojaLogroñoEspaña
| |
Collapse
|
5
|
Costa FDF, Souza RSCD, Voidaleski MF, Gomes RR, Reis GF, Lima BJFDS, Candido GZ, Geraldo MR, Soares JMB, Schneider GX, Trindade EDS, Bini IH, Moreno LF, Bombassaro A, Queiroz-Telles F, Raittz RT, Quan Y, Arruda P, Attili-Angelis D, de Hoog S, Vicente VA. Sugarcane: an unexpected habitat for black yeasts in Chaetothyriales. IMA Fungus 2023; 14:20. [PMID: 37794500 PMCID: PMC10552356 DOI: 10.1186/s43008-023-00124-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2022] [Accepted: 08/22/2023] [Indexed: 10/06/2023] Open
Abstract
Sugarcane (Saccharum officinarum, Poaceae) is cultivated on a large scale in (sub)tropical regions such as Brazil and has considerable economic value for sugar and biofuel production. The plant is a rich substrate for endo- and epiphytic fungi. Black yeasts in the family Herpotrichiellaceae (Chaetothyriales) are colonizers of human-dominated habitats, particularly those rich in toxins and hydrocarbon pollutants, and may cause severe infections in susceptible human hosts. The present study assessed the diversity of Herpotrichiellaceae associated with sugarcane, using in silico identification and selective isolation. Using metagenomics, we identified 5833 fungal sequences, while 639 black yeast-like isolates were recovered in vitro. In both strategies, the latter fungi were identified as members of the genera Cladophialophora, Exophiala, and Rhinocladiella (Herpotrichiellaceae), Cyphellophora (Cyphellophoraceae), and Knufia (Trichomeriaceae). In addition, we discovered new species of Cladophialophora and Exophiala from sugarcane and its rhizosphere. The first environmental isolation of Cladophialophora bantiana is particularly noteworthy, because this species up to now is exclusively known from the human host where it mostly causes fatal brain disease in otherwise healthy patients.
Collapse
Affiliation(s)
- Flávia de F Costa
- Engineering Bioprocess and Biotechnology Post-Graduation Program, Department of Bioprocess Engineering and Biotechnology, Federal University of Paraná, Curitiba, Paraná, Brazil
| | - Rafael S C de Souza
- Molecular Biology and Genetics Engineering Center, State University of Campinas (UNICAMP), Campinas, São Paulo, Brazil
| | - Morgana F Voidaleski
- Microbiology, Parasitology and Pathology Post-Graduation Program, Department of Basic Pathology, Federal University of Paraná, Curitiba, Paraná, Brazil
| | - Renata R Gomes
- Microbiology, Parasitology and Pathology Post-Graduation Program, Department of Basic Pathology, Federal University of Paraná, Curitiba, Paraná, Brazil
| | - Guilherme F Reis
- Engineering Bioprocess and Biotechnology Post-Graduation Program, Department of Bioprocess Engineering and Biotechnology, Federal University of Paraná, Curitiba, Paraná, Brazil
| | - Bruna J F de S Lima
- Microbiology, Parasitology and Pathology Post-Graduation Program, Department of Basic Pathology, Federal University of Paraná, Curitiba, Paraná, Brazil
| | - Giovanna Z Candido
- Microbiology, Parasitology and Pathology Post-Graduation Program, Department of Basic Pathology, Federal University of Paraná, Curitiba, Paraná, Brazil
| | - Marlon R Geraldo
- Microbiology, Parasitology and Pathology Post-Graduation Program, Department of Basic Pathology, Federal University of Paraná, Curitiba, Paraná, Brazil
| | - Jade M B Soares
- Biological Sciences Graduation, Federal University of Paraná, Curitiba, Paraná, Brazil
| | - Gabriela X Schneider
- Microbiology, Parasitology and Pathology Post-Graduation Program, Department of Basic Pathology, Federal University of Paraná, Curitiba, Paraná, Brazil
| | | | - Israel H Bini
- Department of Cell Biology, Federal University of Paraná, Curitiba, Paraná, Brazil
| | - Leandro F Moreno
- Microbiology, Parasitology and Pathology Post-Graduation Program, Department of Basic Pathology, Federal University of Paraná, Curitiba, Paraná, Brazil
| | - Amanda Bombassaro
- Microbiology, Parasitology and Pathology Post-Graduation Program, Department of Basic Pathology, Federal University of Paraná, Curitiba, Paraná, Brazil
| | - Flávio Queiroz-Telles
- Microbiology, Parasitology and Pathology Post-Graduation Program, Department of Basic Pathology, Federal University of Paraná, Curitiba, Paraná, Brazil
- Clinical Hospital of the Federal University of Paraná, Federal University of Paraná, Curitiba, Paraná, Brazil
| | - Roberto T Raittz
- Laboratory of Bioinformatics, Professional and Technological Education Sector, Federal University of Paraná, Curitiba, Brazil
| | - Yu Quan
- Center of Expertise in Mycology of Radboud, University Medical Center / Canisius Wilhelmina Hospital, Nijmegen, The Netherlands
| | - Paulo Arruda
- Molecular Biology and Genetics Engineering Center, State University of Campinas (UNICAMP), Campinas, São Paulo, Brazil
- Genetics and Evolution Department, Biology Institute, State University of Campinas (UNICAMP), Campinas, São Paulo, Brazil
| | - Derlene Attili-Angelis
- Division of Microbial Resources (DRM/CPQBA), State University of Campinas (UNICAMP), Campinas, São Paulo, Brazil
| | - Sybren de Hoog
- Microbiology, Parasitology and Pathology Post-Graduation Program, Department of Basic Pathology, Federal University of Paraná, Curitiba, Paraná, Brazil.
- Center of Expertise in Mycology of Radboud, University Medical Center / Canisius Wilhelmina Hospital, Nijmegen, The Netherlands.
| | - Vania A Vicente
- Engineering Bioprocess and Biotechnology Post-Graduation Program, Department of Bioprocess Engineering and Biotechnology, Federal University of Paraná, Curitiba, Paraná, Brazil.
- Microbiology, Parasitology and Pathology Post-Graduation Program, Department of Basic Pathology, Federal University of Paraná, Curitiba, Paraná, Brazil.
| |
Collapse
|
6
|
Thitla T, Kumla J, Hongsanan S, Senwanna C, Khuna S, Lumyong S, Suwannarach N. Exploring diversity rock-inhabiting fungi from northern Thailand: a new genus and three new species belonged to the family Herpotrichiellaceae. Front Cell Infect Microbiol 2023; 13:1252482. [PMID: 37692164 PMCID: PMC10485699 DOI: 10.3389/fcimb.2023.1252482] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2023] [Accepted: 08/01/2023] [Indexed: 09/12/2023] Open
Abstract
Members of the family Herpotrichiellaceae are distributed worldwide and can be found in various habitats including on insects, plants, rocks, and in the soil. They are also known to be opportunistic human pathogens. In this study, 12 strains of rock-inhabiting fungi that belong to Herpotrichiellaceae were isolated from rock samples collected from forests located in Lamphun and Sukhothai provinces of northern Thailand during the period from 2021 to 2022. On the basis of the morphological characteristics, growth temperature, and multi-gene phylogenetic analyses of a combination of the internal transcribed spacer, the large subunit, and the small subunit of ribosomal RNA, beta tubulin and the translation elongation factor 1-a genes, the new genus, Petriomyces gen. nov., has been established to accommodate the single species, Pe. obovoidisporus sp. nov. In addition, three new species of Cladophialophora have also been introduced, namely, Cl. rupestricola, Cl. sribuabanensis, and Cl. thailandensis. Descriptions, illustrations, and a phylogenetic trees indicating the placement of these new taxa are provided. Here, we provide updates and discussions on the phylogenetic placement of other fungal genera within Herpotrichiellaceae.
Collapse
Affiliation(s)
- Tanapol Thitla
- Master of Science Program in Applied Microbiology (International Program), Faculty of Science, Chiang Mai University, Chiang Mai, Thailand
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai, Thailand
| | - Jaturong Kumla
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai, Thailand
- Center of Excellence in Microbial Diversity and Sustainable Utilization, Chiang Mai University, Chiang Mai, Thailand
| | - Sinang Hongsanan
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai, Thailand
- Center of Excellence in Microbial Diversity and Sustainable Utilization, Chiang Mai University, Chiang Mai, Thailand
| | - Chanokned Senwanna
- Center of Excellence in Microbial Diversity and Sustainable Utilization, Chiang Mai University, Chiang Mai, Thailand
| | - Surapong Khuna
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai, Thailand
- Center of Excellence in Microbial Diversity and Sustainable Utilization, Chiang Mai University, Chiang Mai, Thailand
| | - Saisamorn Lumyong
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai, Thailand
- Center of Excellence in Microbial Diversity and Sustainable Utilization, Chiang Mai University, Chiang Mai, Thailand
- Academy of Science, The Royal Society of Thailand, Bangkok, Thailand
| | - Nakarin Suwannarach
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai, Thailand
- Center of Excellence in Microbial Diversity and Sustainable Utilization, Chiang Mai University, Chiang Mai, Thailand
| |
Collapse
|
7
|
Nonthijun P, Mills N, Mills N, Yongsawas R, Sansupa C, Suwannarach N, Jaikang C, Motanated K, Chayapakdee P, Jongjitngam S, Noirungsee N, Disayathanoowat T. Seasonal Variations in Fungal Communities on the Surfaces of Lan Na Sandstone Sculptures and Their Biodeterioration Capacities. J Fungi (Basel) 2023; 9:833. [PMID: 37623604 PMCID: PMC10455195 DOI: 10.3390/jof9080833] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2023] [Revised: 08/02/2023] [Accepted: 08/06/2023] [Indexed: 08/26/2023] Open
Abstract
Environmental factors and climate are the primary factors influencing the microbial colonization and deterioration of cultural heritage in outdoor environments. Hence, it is imperative to investigate seasonal variations in microbial communities and the biodeterioration they cause. This study investigated the surfaces of sandstone sculptures at Wat Umong Suan Phutthatham, Chiang Mai, Thailand, during wet and dry seasons using culture-dependent and culture-independent approaches. The fungi isolated from the sandstone sculptures were assessed for biodeterioration attributes including drought tolerance, acid production, calcium crystal formation, and calcium precipitation. The results show that most of the fungal isolates exhibited significant potential for biodeterioration activities. Furthermore, a culture-independent approach was employed to investigate the fungal communities and assess their diversity, interrelationship, and predicted function. The fungal diversity and the communities varied seasonally. The functional prediction indicated that pathotroph-saprotroph fungi comprised the main fungal guild in the dry season, and pathotroph-saprotroph-symbiotroph fungi comprised the dominant guild in the wet season. Remarkably, a network analysis revealed numerous positive correlations among fungal taxa within each season, suggesting a potential synergy that promotes the biodeterioration of sandstone. These findings offer valuable insights into seasonal variations in fungal communities and their impacts on the biodeterioration of sandstone sculptures. This information can be utilized for monitoring, management, and maintenance strategies aimed at preserving this valuable cultural heritage.
Collapse
Affiliation(s)
- Paradha Nonthijun
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.N.); (N.M.); (N.M.); (R.Y.); (C.S.); (N.S.); (P.C.)
| | - Natasha Mills
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.N.); (N.M.); (N.M.); (R.Y.); (C.S.); (N.S.); (P.C.)
| | - Nantana Mills
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.N.); (N.M.); (N.M.); (R.Y.); (C.S.); (N.S.); (P.C.)
| | - Rujipas Yongsawas
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.N.); (N.M.); (N.M.); (R.Y.); (C.S.); (N.S.); (P.C.)
| | - Chakriya Sansupa
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.N.); (N.M.); (N.M.); (R.Y.); (C.S.); (N.S.); (P.C.)
| | - Nakarin Suwannarach
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.N.); (N.M.); (N.M.); (R.Y.); (C.S.); (N.S.); (P.C.)
- Center of Excellence in Microbial Diversity and Sustainable Utilization, Chiang Mai University, Chiang Mai 50200, Thailand
| | - Churdsak Jaikang
- Toxicology Section, Department of Forensic Medicine, Faculty of Medicine, Chiang Mai University, Chiang Mai 50200, Thailand;
| | - Kannipa Motanated
- Department of Geological Sciences, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand;
| | - Pattarasuda Chayapakdee
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.N.); (N.M.); (N.M.); (R.Y.); (C.S.); (N.S.); (P.C.)
- Center of Excellence in Microbial Diversity and Sustainable Utilization, Chiang Mai University, Chiang Mai 50200, Thailand
| | - Surachai Jongjitngam
- Department of Thai Art, Faculty of Fine Arts, Chiang Mai University, Chiang Mai 50200, Thailand;
| | - Nuttapol Noirungsee
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.N.); (N.M.); (N.M.); (R.Y.); (C.S.); (N.S.); (P.C.)
- Center of Excellence in Microbial Diversity and Sustainable Utilization, Chiang Mai University, Chiang Mai 50200, Thailand
| | - Terd Disayathanoowat
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.N.); (N.M.); (N.M.); (R.Y.); (C.S.); (N.S.); (P.C.)
- Center of Excellence in Microbial Diversity and Sustainable Utilization, Chiang Mai University, Chiang Mai 50200, Thailand
| |
Collapse
|
8
|
Bailão AM, Silva KLPD, Moraes D, Lechner B, Lindner H, Haas H, Soares CMA, Silva-Bailão MG. Iron Starvation Induces Ferricrocin Production and the Reductive Iron Acquisition System in the Chromoblastomycosis Agent Cladophialophora carrionii. J Fungi (Basel) 2023; 9:727. [PMID: 37504717 PMCID: PMC10382037 DOI: 10.3390/jof9070727] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2023] [Revised: 07/01/2023] [Accepted: 07/03/2023] [Indexed: 07/29/2023] Open
Abstract
Iron is a micronutrient required by almost all living organisms. Despite being essential, the availability of this metal is low in aerobic environments. Additionally, mammalian hosts evolved strategies to restrict iron from invading microorganisms. In this scenario, the survival of pathogenic fungi depends on high-affinity iron uptake mechanisms. Here, we show that the production of siderophores and the reductive iron acquisition system (RIA) are employed by Cladophialophora carrionii under iron restriction. This black fungus is one of the causative agents of chromoblastomycosis, a neglected subcutaneous tropical disease. Siderophore biosynthesis genes are arranged in clusters and, interestingly, two RIA systems are present in the genome. Orthologs of putative siderophore transporters were identified as well. Iron starvation regulates the expression of genes related to both siderophore production and RIA systems, as well as of two transcription factors that regulate iron homeostasis in fungi. A chrome azurol S assay demonstrated the secretion of hydroxamate-type siderophores, which were further identified via RP-HPLC and mass spectrometry as ferricrocin. An analysis of cell extracts also revealed ferricrocin as an intracellular siderophore. The presence of active high-affinity iron acquisition systems may surely contribute to fungal survival during infection.
Collapse
Affiliation(s)
- Alexandre Melo Bailão
- Instituto de Ciências Biológicas, Universidade Federal de Goiás, Goiânia 74690-900, Brazil
| | | | - Dayane Moraes
- Instituto de Ciências Biológicas, Universidade Federal de Goiás, Goiânia 74690-900, Brazil
| | - Beatrix Lechner
- Institute of Molecular Biology/Biocenter, Medical University of Innsbruck, 795J+RF Innsbruck, Austria
| | - Herbert Lindner
- Institute of Medical Biochemistry/Biocenter, Medical University of Innsbruck, 795J+RF Innsbruck, Austria
| | - Hubertus Haas
- Institute of Molecular Biology/Biocenter, Medical University of Innsbruck, 795J+RF Innsbruck, Austria
| | | | | |
Collapse
|
9
|
Philpott M, Liew ECY, van der Merwe MM, Mertin A, French K. The Influence of Cone Age and Urbanisation on the Diversity and Community Composition of Culturable Seed Fungal Endophytes within Native Australian Banksia ericifolia L.f. subsp. ericifolia. J Fungi (Basel) 2023; 9:706. [PMID: 37504695 PMCID: PMC10381327 DOI: 10.3390/jof9070706] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2023] [Revised: 06/25/2023] [Accepted: 06/26/2023] [Indexed: 07/29/2023] Open
Abstract
Seed fungal endophytes play a crucial role in assisting the overall health and success of their host plant; however, little is known about the factors that influence the diversity and composition of these endophytes, particularly with respect to how they change over time and within urban environments. Using culturing techniques, morphological analyses, and Sanger sequencing, we identified the culturable seed fungal endophytes of Banksia ericifolia at two urban and two natural sites in Sydney, New South Wales, Australia. A total of 27 Operational Taxonomic Units were obtained from 1200 seeds. Older cones were found to contain, on average, more colonised endophytes than younger cones. Species richness was also significantly influenced by cone age, with older cones being more speciose. Between urban and natural sites, the overall community composition did not change, although species richness and diversity were greatest at urban sites. Understanding how these endophytes vary in time and space may help provide an insight into the transmission pathways used and the potential role they play within the development and survival of the seed. This knowledge may also be crucial for restoration purposes, especially regarding the need to consider endophyte viability in ex situ seed collection and storage in seed-banking practices.
Collapse
Affiliation(s)
- Merize Philpott
- Centre for Sustainable Ecosystems Solutions, School of Earth, Atmospheric and Life Sciences, University of Wollongong, Wollongong, NSW 2522, Australia
| | - Edward C Y Liew
- Research Centre for Ecosystem Resilience, The Royal Botanic Gardens and Domain Trust, Mrs Macquaries Rd, Sydney, NSW 2000, Australia
| | - Marlien M van der Merwe
- Research Centre for Ecosystem Resilience, The Royal Botanic Gardens and Domain Trust, Mrs Macquaries Rd, Sydney, NSW 2000, Australia
| | - Allison Mertin
- Research Centre for Ecosystem Resilience, The Royal Botanic Gardens and Domain Trust, Mrs Macquaries Rd, Sydney, NSW 2000, Australia
| | - Kristine French
- Centre for Sustainable Ecosystems Solutions, School of Earth, Atmospheric and Life Sciences, University of Wollongong, Wollongong, NSW 2522, Australia
| |
Collapse
|
10
|
Chang R, Wang Y, Liu Y, Wang Y, Li S, Zhao G, Zhang S, Dai M, Zheng X, Bose T, Si H. Nine new species of black lichenicolous fungi from the genus Cladophialophora (Chaetothyriales) from two different climatic zones of China. Front Microbiol 2023; 14:1191818. [PMID: 37396360 PMCID: PMC10312087 DOI: 10.3389/fmicb.2023.1191818] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2023] [Accepted: 05/30/2023] [Indexed: 07/04/2023] Open
Abstract
Lichenicolous fungi are parasites of lichens. Many of these fungi are referred to as "black fungi". A diversity of these black fungi include species that are pathogenic to humans and plants. A majority of black fungi reside in the phylum Ascomycota within the sub-classes Chaetothyriomycetidae and Dothideomycetidae. To explore the diversity of lichenicolous "black fungi" associated with lichens in China, we conducted several field surveys in the Inner Mongolia Autonomous Region and Yunnan Province between 2019 and 2020. We recovered 1,587 fungal isolates from the lichens collected during these surveys. During the preliminary identification of these isolates using the complete internal transcribed spacer (ITS), partial large subunit of nuclear ribosomal RNA gene (LSU), and small subunit of nuclear ribosomal RNA gene (SSU), we identified 15 fungal isolates from the genus Cladophialophora. However, these isolates had low sequence similarities with all known species from the genus. Therefore, we amplified additional gene regions, such as, translation elongation factor (TEF) and partial β-tubulin gene (TUB), and constructed a multi-gene phylogeny using maximum likelihood, maximum parsimony, and Bayesian inference. In our datasets, we included type sequences where available for all Cladophialophora species. Phylogenetic analyses revealed that none of the 15 isolates belonged to any of the previously described species in the genus. Therefore, using both morphological and molecular data, we classified these 15 isolates as nine new species within the genus Cladophialophora: C. flavoparmeliae, C. guttulate, C. heterodermiae, C. holosericea, C. lichenis, C. moniliformis, C. mongoliae, C. olivacea, and C. yunnanensis. The outcome from this study shows that lichens are an important refugia for black lichenicolous fungi, such as those from Chaetothyriales.
Collapse
Affiliation(s)
- Runlei Chang
- College of Life Sciences, Shandong Normal University, Jinan, China
- Dongying Institute, Shandong Normal University, Dongying, China
| | - Yichen Wang
- College of Life Sciences, Shandong Normal University, Jinan, China
| | - Yanyu Liu
- College of Life Sciences, Shandong Normal University, Jinan, China
| | - Yiran Wang
- College of Life Sciences, Shandong Normal University, Jinan, China
| | - Shiguo Li
- College of Life Sciences, Shandong Normal University, Jinan, China
- Dongying Institute, Shandong Normal University, Dongying, China
| | - Guoyan Zhao
- College of Life Sciences, Shandong Normal University, Jinan, China
- Dongying Institute, Shandong Normal University, Dongying, China
| | - Susu Zhang
- College of Life Sciences, Shandong Normal University, Jinan, China
- Dongying Institute, Shandong Normal University, Dongying, China
| | - Meixue Dai
- College of Life Sciences, Shandong Normal University, Jinan, China
- Dongying Institute, Shandong Normal University, Dongying, China
| | - Xiaoxiao Zheng
- College of Life Sciences, Shandong Normal University, Jinan, China
| | - Tanay Bose
- Department of Biochemistry, Genetics and Microbiology, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa
| | - Hongli Si
- College of Life Sciences, Shandong Normal University, Jinan, China
- Dongying Institute, Shandong Normal University, Dongying, China
| |
Collapse
|
11
|
Torres-Garcia D, García D, Réblová M, Jurjević Ž, Hubka V, Gené J. Diversity and novel lineages of black yeasts in Chaetothyriales from freshwater sediments in Spain. PERSOONIA 2023; 51:194-228. [PMID: 38665982 PMCID: PMC11041900 DOI: 10.3767/persoonia.2023.51.05] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2023] [Accepted: 07/19/2023] [Indexed: 04/28/2024]
Abstract
Black yeasts comprise a group of Ascomycota of the order Chaetothyriales with highly variable morphology, a great diversity of ecological niches and life cycles. Despite the ubiquity of these fungi, their diversity in freshwater sediments is still poorly understood. During a survey of culturable Ascomycota from river and stream sediments in various sampling sites in Spain, we obtained 47 isolates of black yeasts by using potato dextrose agar supplemented with cycloheximide. A preliminary morphological study and sequence analyses of the internal transcribed spacer region (ITS) and the large subunit (LSU) of the nuclear rDNA revealed that most of the isolates belonged to the family Herpotrichiellaceae. We have confidently identified 30 isolates representing the following species: Capronia pulcherrima, Cladophialophora emmonsii, Exophiala equina, Exophiala pisciphila, Exophiala radicis, and Phialophora americana. However, we encountered difficulty in assigning 17 cultures to any known species within Chaetothyriales. Combining phenotypic and multi-locus phylogenetic analyses based on the ITS, LSU, β-tubulin (tub2) and translation elongation factor 1-α (tef1-α) gene markers, we propose the new genus Aciculomyces in the Herpotrichiellaceae to accommodate the novel species Aciculomyces restrictus. Other novel species in this family include Cladophialophora denticulata, Cladophialophora heterospora, Cladophialophora irregularis, Exophiala candelabrata, Exophiala dehoogii, Exophiala ramosa, Exophiala verticillata and Phialophora submersa. The new species Cyphellophora spiralis, closely related to Cyphellophora suttonii, is described, and the phylogeny of the genus Anthopsis in the family Cyphellophoraceae is discussed. By utilizing these four markers, we were able to strengthen the phylogenetic resolution and provide more robust taxonomic assessments within the studied group. Our findings indicate that freshwater sediments may serve as a reservoir for intriguing black yeasts, which warrant further investigation to address gaps in phylogenetic relationships, particularly within Herpotrichiellaceae. Citation: Torres-Garcia D, García D, Réblová M, et al. 2023. Diversity and novel lineages of black yeasts in Chaetothyriales from freshwater sediments in Spain. Persoonia 51: 194-228. doi: 10.3767/persoonia.2023.51.05.
Collapse
Affiliation(s)
- D. Torres-Garcia
- Universitat Rovira i Virgili, Facultat de Medicina i Ciències de la Salut and IU-RESCAT, Unitat de Micologia i Microbiologia Ambiental, Reus, Catalonia, Spain
| | - D. García
- Universitat Rovira i Virgili, Facultat de Medicina i Ciències de la Salut and IU-RESCAT, Unitat de Micologia i Microbiologia Ambiental, Reus, Catalonia, Spain
| | - M. Réblová
- The Czech Academy of Sciences, Institute of Botany, Department of Taxonomy, Průhonice, Czech Republic
| | - Ž. Jurjević
- EMSL Analytical, Cinnaminson, New Jersey, USA
| | - V. Hubka
- Charles University, Faculty of Science, Department of Botany, Prague, Czech Republic
- The Czech Academy of Sciences, Institute of Microbiology, Laboratory of Fungal Genetics and Metabolism, Prague, Czech Republic
| | - J. Gené
- Universitat Rovira i Virgili, Facultat de Medicina i Ciències de la Salut and IU-RESCAT, Unitat de Micologia i Microbiologia Ambiental, Reus, Catalonia, Spain
| |
Collapse
|
12
|
Chromoblastomycosis due to Cladophialophora immunda: An emerging pathogen in immunocompromised patients? ENFERMEDADES INFECCIOSAS Y MICROBIOLOGIA CLINICA (ENGLISH ED.) 2023; 41:51-53. [PMID: 36443189 DOI: 10.1016/j.eimce.2022.11.006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/13/2022] [Revised: 02/08/2022] [Accepted: 02/20/2022] [Indexed: 11/26/2022]
|
13
|
Ji J, Yu J, Ye Y, Sheng L, Fang J, Yang Y, Sun X. Biodegradation methods and product analysis of zearalenone and its future development trend: A review. Food Control 2022. [DOI: 10.1016/j.foodcont.2022.109469] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
|
14
|
Liu J, Tang Y, Bao J, Wang H, Peng F, Tan P, Chu G, Liu S. A Stronger Rhizosphere Impact on the Fungal Communities Compared to the Bacterial Communities in Pecan Plantations. Front Microbiol 2022; 13:899801. [PMID: 35847123 PMCID: PMC9279573 DOI: 10.3389/fmicb.2022.899801] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2022] [Accepted: 06/02/2022] [Indexed: 11/13/2022] Open
Abstract
Understanding microbial communities associated with bulk and rhizosphere soils will benefit the maintenance of forest health and productivity and the sustainable development of forest ecosystems. Based on MiSeq sequencing, we explored the differences between the bulk soil and the rhizosphere soil on bacterial and fungal communities of pecan plantation. Results suggested that rhizosphere-associated fungal rather than bacterial community structures differed from bulk soil, and rhizosphere soil had lower fungal diversity than bulk soil. Actinobacteria and Cantharellales were the bacterial and fungal biomarkers of the rhizosphere soil of pecan plantation, respectively. In addition, Pleosporales, which are mainly involved in saprophylaxis and plant pathogenic processes, was identified as one of the most important fungal biomarkers for the bulk soil, and the FunGuild predicted a higher relative abundance of pathogenic fungi in bulk soil compared to rhizosphere soil. The pH, ammonium nitrogen (NH4+-N), nitrate nitrogen (NO3--N), and total carbon (TC) contents drove microbial community structure and composition. The bacterial network was simpler in the rhizosphere soil than in the bulk soil. However, fungi showed the opposite network pattern. Keystone species in bacterial and fungal networks were mostly involved in nutrient cycling and the C cycling, and were found to be enriched in the rhizosphere soil. Overall, in terms of bacterial and fungal communities, the rhizosphere soil behaves more healthily than the bulk soil and has a higher potential for nutrient cycling.
Collapse
Affiliation(s)
- Junping Liu
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Yujie Tang
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Jiashu Bao
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Hankun Wang
- College of Biology and the Environment, Nanjing Forestry University, Nanjing, China
| | - Fangren Peng
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing, China
- *Correspondence: Fangren Peng
| | - Pengpeng Tan
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Guolin Chu
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Shuai Liu
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing, China
| |
Collapse
|
15
|
Abadías-Granado I, Gómez-Mateo MC, Stchigel AM, López C. Cromoblastomicosis por Cladophialophora immunda: ¿un patógeno emergente en pacientes inmunocomprometidos? Enferm Infecc Microbiol Clin 2022. [DOI: 10.1016/j.eimc.2022.02.010] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
|
16
|
Coleine C, Selbmann L, Singh BK, Delgado-Baquerizo M. The poly-extreme tolerant black yeasts are prevalent under high ultraviolet light and climatic seasonality across soils of global biomes. Environ Microbiol 2022; 24:1988-1999. [PMID: 35324062 PMCID: PMC9311647 DOI: 10.1111/1462-2920.15969] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2021] [Revised: 03/04/2022] [Accepted: 03/04/2022] [Indexed: 11/29/2022]
Abstract
Black yeasts are among the most stress‐tolerant organisms of the planet, thriving under all types of terrestrial habitats and extreme environments. Yet, their global patterns and ecology remain far less studied, limiting our capacity to identify the main environmental drivers of these important organisms across biomes. To fill this knowledge gap, we analysed topsoils from 235 terrestrial ecosystems across and within globally distributed climate groups (i.e. dry, temperate and continental). We found that soils are important repositories of black yeasts, and that ultraviolet light, fine soil texture, and precipitation seasonality are the most consistent environmental factors associated with their diversity across biomes. Finally, we identified Exophiala and Cladophialophora as the most dominant black yeasts genera in soils across the globe. These findings provide novel evidence of global distribution of black yeasts and their key environmental predictors, giving new insights for speculating the evolution and spreading of these extreme‐tolerant organisms throughout both natural and human associated extreme environments.
Collapse
Affiliation(s)
- Claudia Coleine
- Department of Ecological and Biological Sciences, University of Tuscia, Viterbo, Italy
| | - Laura Selbmann
- Department of Ecological and Biological Sciences, University of Tuscia, Viterbo, Italy.,Italian Antarctic National Museum (MNA), Mycological Section, Genoa, Italy
| | - Brajesh K Singh
- Global Centre for Land-Based Innovation, Western Sydney University, Penrith, NSW, Australia.,Hawkesbury Institute for the Environment, Western Sydney University, Penrith, NSW, Australia
| | - Manuel Delgado-Baquerizo
- Laboratorio de Biodiversidad y Funcionamiento Ecosistémico. Instituto de Recursos Naturales y Agrobiología de Sevilla (IRNAS), CSIC, Sevilla, Spain.,Unidad Asociada CSIC-UPO (BioFun). Universidad Pablo de Olavide, Sevilla, 41013, Spain
| |
Collapse
|
17
|
Climate Change Impact on Chromoblastomycosis. Fungal Biol 2022. [DOI: 10.1007/978-3-030-89664-5_7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
|
18
|
Venice F, Vizzini A, Frascella A, Emiliani G, Danti R, Della Rocca G, Mello A. Localized reshaping of the fungal community in response to a forest fungal pathogen reveals resilience of Mediterranean mycobiota. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 800:149582. [PMID: 34426333 DOI: 10.1016/j.scitotenv.2021.149582] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/25/2021] [Revised: 07/16/2021] [Accepted: 08/07/2021] [Indexed: 06/13/2023]
Abstract
Mediterranean forests are facing the impact of pests such as the soilborne Phytophthora cambivora, the causal agent of Ink disease, and this impact is made more severe by global changes. The status and resilience of the soil microbial ecosystem in areas with such a disturbance are little known; however, the assessment of the microbial community is fundamental to preserve the ecosystem functioning under emerging challenges. We profile soil fungal communities in a chestnut stand affected by ink disease in Italy using metabarcoding, and couple high-throughput sequencing with physico-chemical parameters and dendrometric measurements. Since the site also includes an area where the disease symptoms seem to be suppressed, we performed several analyses to search for determinants that may contribute to such difference. We demonstrate that neither pathogen presence nor trees decline associate with the reduction of the residing community diversity and functions, but rather with microbial network reshaping through substitutions and new interactions, despite a conservation of core taxa. We predict interactions between taxa and parameters such as soil pH and C/N ratio, and suggest that disease incidence may also relate with disappearance of pathogen antagonists, including ericoid- and ectomycorrhizal (ECM) fungi. By combining metabarcoding and field studies, we infer the resilient status of the fungal community towards a biotic stressor, and provide a benchmark for the study of other threatened ecosystems.
Collapse
Affiliation(s)
- Francesco Venice
- Institute for Sustainable Plant Protection (IPSP)-SS Turin-National Research Council (CNR), Viale Mattioli 25, 10125 Turin, Italy
| | - Alfredo Vizzini
- Institute for Sustainable Plant Protection (IPSP)-SS Turin-National Research Council (CNR), Viale Mattioli 25, 10125 Turin, Italy; Department of Life Sciences and System Biology, University of Turin, Viale Mattioli 25, 10125 Turin, Italy
| | - Arcangela Frascella
- Institute for Sustainable Plant Protection (IPSP)-National Research Council (CNR), Via Madonna del Piano 10, 50019 Sesto F.no (FI), Italy
| | - Giovanni Emiliani
- Institute for Sustainable Plant Protection (IPSP)-National Research Council (CNR), Via Madonna del Piano 10, 50019 Sesto F.no (FI), Italy
| | - Roberto Danti
- Institute for Sustainable Plant Protection (IPSP)-National Research Council (CNR), Via Madonna del Piano 10, 50019 Sesto F.no (FI), Italy
| | - Gianni Della Rocca
- Institute for Sustainable Plant Protection (IPSP)-National Research Council (CNR), Via Madonna del Piano 10, 50019 Sesto F.no (FI), Italy
| | - Antonietta Mello
- Institute for Sustainable Plant Protection (IPSP)-SS Turin-National Research Council (CNR), Viale Mattioli 25, 10125 Turin, Italy.
| |
Collapse
|
19
|
Samaddar A, Priyadarshi K, Shankarnarayan SA, Sharma A, Garg M, Shrimali T, Ghosh AK. Fatal cerebral phaeohyphomycosis caused by Cladophialophora bantiana mimicking tuberculous brain abscess. Germs 2021; 11:597-603. [PMID: 35096677 PMCID: PMC8789348 DOI: 10.18683/germs.2021.1295] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2021] [Revised: 10/04/2021] [Accepted: 10/06/2021] [Indexed: 11/19/2023]
Abstract
INTRODUCTION Cladophialophora bantiana, a neurotropic phaeoid fungus, is the primary agent of cerebral phaeohyphomycosis. The disease more commonly affects immunocompetent males and is associated with a high mortality rate. CASE REPORT We report a case of brain abscess caused by Cladophialophora bantiana in a 50-year-old immunocompetent male who presented with headache for two months, weakness of both lower limbs for 15 days, and altered sensorium and aphasia for one day. Contrast-enhanced MRI of the brain showed multiple coalescent abscesses in the right basal ganglia and corpus callosum. Based on clinical and radiological suspicion of tuberculoma, treatment with antitubercular drugs was initiated. A month after discharge, the patient was re-admitted with history of loss of consciousness, altered sensorium, respiratory distress and aphasia. Brain CECT revealed multiple ring-enhancing lesions in the right basal ganglia with mass effect and a leftward midline shift. The patient underwent craniotomy and evacuation of abscess. Direct microscopy of pus aspirated from the lesions showed pigmented septate fungal hyphae, which was identified as C. bantiana in fungal culture. The patient was administered intravenous liposomal amphotericin B and voriconazole. However, he died due to multiple organ failure on day 19 after surgery. CONCLUSIONS Fungal etiology should be considered in the differential diagnosis of intracranial space occupying lesions, regardless of the host immune status. An early diagnosis, together with aggressive medical and neurosurgical interventions are imperative for improving the survival in such patients.
Collapse
Affiliation(s)
- Arghadip Samaddar
- MD, Senior Resident, Department of Microbiology, All India Institute of Medical Sciences, Basni, Phase 2 Industrial Area, Jodhpur- 342005, Rajasthan, India
| | - Ketan Priyadarshi
- MD, Department of Microbiology, All India Institute of Medical Sciences, Jodhpur- 342005, Rajasthan, India
| | - Shamanth A. Shankarnarayan
- PhD, Department of Medical Microbiology, Postgraduate Institute of Medical Education and Research, Chandigarh- 160012, India
| | - Anuradha Sharma
- MD, Department of Microbiology, All India Institute of Medical Sciences, Jodhpur- 342005, Rajasthan, India
| | - Mayank Garg
- MCh, Department of Neurosurgery, All India Institute of Medical Sciences, Jodhpur- 342005, Rajasthan, India
| | - Twishi Shrimali
- MD, Department of Microbiology, All India Institute of Medical Sciences, Jodhpur- 342005, Rajasthan, India
| | - Anup K. Ghosh
- PhD, Department of Medical Microbiology, Postgraduate Institute of Medical Education and Research, Chandigarh- 160012, India
| |
Collapse
|
20
|
Reviewing the Etiologic Agents, Microbe-Host Relationship, Immune Response, Diagnosis, and Treatment in Chromoblastomycosis. J Immunol Res 2021; 2021:9742832. [PMID: 34761009 PMCID: PMC8575639 DOI: 10.1155/2021/9742832] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2021] [Accepted: 09/30/2021] [Indexed: 01/19/2023] Open
Abstract
Chromoblastomycosis (CBM) is a neglected human disease, caused by different species of pigmented dematiaceous fungi that cause subcutaneous infections. This disease has been considered an occupational disease, occurring among people working in the field of agriculture, particularly in low-income countries. In 1914, the first case of CBM was described in Brazil, and although efforts have been made, few scientific and technological advances have been made in this area. In the field of fungi and host cell relationship, a very reduced number of antigens were characterized, but available data suggest that ectoantigens bind to the cell membrane of host cells and modulate the phagocytic, immunological, and microbicidal responses of immune cells. Furthermore, antigens cleave extracellular proteins in tissues, allowing fungi to spread. On the contrary, if phagocytic cells are able to present antigens in MHC molecules to T lymphocytes in the presence of costimulation and IL-12, a Th1 immune response will develop and a relative control of the disease will be observed. Despite knowledge of the resistance and susceptibility in CBM, up to now, no effective vaccines have been developed. In the field of chemotherapy, most patients are treated with conventional antifungal drugs, such as itraconazole and terbinafine, but these drugs exhibit limitations, considering that not all patients heal cutaneous lesions. Few advances in treatment have been made so far, but one of the most promising ones is based on the use of immunomodulators, such as imiquimod. Data about a standard treatment are missing in the medical literature; part of it is caused by the existence of a diversity of etiologic agents and clinical forms. The present review summarizes the advances made in the field of CBM related to the diversity of pathogenic species, fungi and host cell relationship, antigens, innate and acquired immunity, clinical forms of CBM, chemotherapy, and diagnosis.
Collapse
|
21
|
Khokon AM, Schneider D, Daniel R, Polle A. Soil Layers Matter: Vertical Stratification of Root-Associated Fungal Assemblages in Temperate Forests Reveals Differences in Habitat Colonization. Microorganisms 2021; 9:2131. [PMID: 34683452 PMCID: PMC8537680 DOI: 10.3390/microorganisms9102131] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2021] [Revised: 09/22/2021] [Accepted: 09/23/2021] [Indexed: 11/17/2022] Open
Abstract
Ectomycorrhizal and saprotrophic fungi play pivotal roles in ecosystem functioning. Here, we studied the vertical differentiation of root-associated fungi (RAF) in temperate forests. We analysed RAF assemblages in the organic and mineral soil from 150 experimental forest plots across three biogeographic regions spanning a distance of about 800 km. Saprotrophic RAF showed the highest richness in organic and symbiotrophic RAF in mineral soil. Symbiotrophic RAF exhibited higher relative abundances than saprotrophic fungi in both soil layers. Beta-diversity of RAF was mainly due to turnover between organic and mineral soil and showed regional differences for symbiotrophic and saprotrophic fungi. Regional differences were also found for different phylogenetic levels, i.e., fungal orders and indicator species in the organic and mineral soil, supporting that habitat conditions strongly influence differentiation of RAF assemblages. Important exceptions were fungal orders that occurred irrespective of the habitat conditions in distinct soil layers across the biogeographic gradient: Russulales and Cantharellales (ectomycorrhizal fungi) were enriched in RAF assemblages in mineral soil, whereas saprotrophic Polyporales and Sordariales and ectomycorrhizal Boletales were enriched in RAF assemblages in the organic layer. These results underpin a phylogenetic signature for niche partitioning at the rank of fungal orders and suggest that RAF assembly entails two strategies encompassing flexible and territorial habitat colonization by different fungal taxa.
Collapse
Affiliation(s)
- Anis Mahmud Khokon
- Department of Forest Botany and Tree Physiology, University of Göttingen, 37077 Göttingen, Germany;
| | - Dominik Schneider
- Genomic and Applied Microbiology and Göttingen Genomics Laboratory, Institute of Microbiology and Genetics, University of Göttingen, 37077 Göttingen, Germany; (D.S.); (R.D.)
| | - Rolf Daniel
- Genomic and Applied Microbiology and Göttingen Genomics Laboratory, Institute of Microbiology and Genetics, University of Göttingen, 37077 Göttingen, Germany; (D.S.); (R.D.)
| | - Andrea Polle
- Department of Forest Botany and Tree Physiology, University of Göttingen, 37077 Göttingen, Germany;
| |
Collapse
|
22
|
Hernandez C, Lawal F. Cerebral and pulmonary phaeohyphomycosis due Cladophialophora bantiana in an immunocompromised patient. IDCases 2021; 25:e01240. [PMID: 34381691 PMCID: PMC8335626 DOI: 10.1016/j.idcr.2021.e01240] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2021] [Revised: 07/23/2021] [Accepted: 07/24/2021] [Indexed: 11/24/2022] Open
Abstract
We report a case of disseminated Cladophialophora bantiana phaeohyphomycosis with cerebral and pulmonary disease in a 69-year-old renal transplant recipient. The patient presented with confusion, low-grade fever and progressed quickly to a comatose state. Imaging revealed multiple small brain abscesses and a right pulmonary nodule. Cultures of bronchial washings and biopsy of the right pulmonary nodule grew C. bantiana, a highly neurotropic fungus with a high mortality rate. He was treated with Isavuconazonium sulfate (Isavuconazole) and Liposomal Amphotericin B along with reduction immunosuppressive therapy. His neurologic status remained unimproved despite treatment with dual antifungal therapy for two months. The patient eventually died from respiratory failure 79 days after his initial presentation, C. bantiana has been reported in both immunocompetent and immunocompromised patients. Its neurotropism has been reported and described in the literature with C. bantiana responsible for 50 % of the reported cases of fungal brain abscess. However, reports of pulmonary and cerebral involvement are exceedingly rare. Our patient was immunocompromised and succumbed to cerebral involvement.
Collapse
Affiliation(s)
| | - Folake Lawal
- Corresponding author at: 1120 15th St, AE- 3024, Augusta, GA, 30912, United States. http://berkeley.edu
| |
Collapse
|
23
|
Black Fungi and Hydrocarbons: An Environmental Survey for Alkylbenzene Assimilation. Microorganisms 2021; 9:microorganisms9051008. [PMID: 34067085 PMCID: PMC8151820 DOI: 10.3390/microorganisms9051008] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2021] [Revised: 04/30/2021] [Accepted: 05/03/2021] [Indexed: 11/25/2022] Open
Abstract
Environmental pollution with alkylbenzene hydrocarbons such as toluene is a recurring phenomenon. Their toxicity and harmful effect on people and the environment drive the search for sustainable removal techniques such as bioremediation, which is based on the microbial metabolism of xenobiotic compounds. Melanized fungi present extremophilic characteristics, which allow their survival in inhospitable habitats such as those contaminated with hydrocarbons. Screening methodologies for testing the microbial assimilation of volatile organic compounds (VOC) are scarce despite their importance for the bioremediation of hydrocarbon associated areas. In this study, 200 strains of melanized fungi were isolated from four different hydrocarbon-related environments by using selective methods, and their biodiversity was assessed by molecular and ecological analyses. Seventeen genera and 27 species from three main orders, namely Chaetothyriales, Cladosporiales, and Pleosporales, were identified. The ecological analysis showed a particular species distribution according to their original substrate. The isolated strains were also screened for their toluene assimilation potential using a simple and inexpensive methodology based on miniaturized incubations under controlled atmospheres. The biomass produced by the 200 strains with toluene as the sole carbon source was compared against positive and negative controls, with glucose and with only mineral medium, respectively. Nineteen strains were selected as the most promising for further investigation on the biodegradation of alkylbenzenes.
Collapse
|
24
|
Yang JH, Oh SY, Kim W, Woo JJ, Kim H, Hur JS. Effect of Isolation Conditions on Diversity of Endolichenic Fungal Communities from a Foliose Lichen, Parmotrema tinctorum. J Fungi (Basel) 2021; 7:jof7050335. [PMID: 33926112 PMCID: PMC8146534 DOI: 10.3390/jof7050335] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2021] [Revised: 04/15/2021] [Accepted: 04/23/2021] [Indexed: 11/22/2022] Open
Abstract
Endolichenic fungi (ELF) are emerging novel bioresources because their diverse secondary metabolites have a wide range of biological activities. Metagenomic analysis of lichen thalli demonstrated that the conventional isolation method of ELF covers a very limited range of ELF, and the development of an advanced isolation method is needed. The influence of four variables were investigated in this study to determine the suitable conditions for the isolation of more diverse ELF from a radially growing foliose lichen, Parmotrema tinctorum. Four variables were tested: age of the thallus, severity of surface-sterilization of the thallus, size of a thallus fragment for the inoculation, and nutrient requirement. In total, 104 species (1885 strains) of ELF were isolated from the five individual thalli of P. tinctorum collected at five different places. Most of the ELF isolates belong to Sordariomycetes. Because each part of lichen thallus (of different age) has unique ELF species, the whole thallus of the foliose lichen is needed to isolate diverse ELF. Moderate sterilization is appropriate for the isolation of diverse ELF. Inoculation of small fragment (1 mm2) of lichen thallus resulted in the isolation of highest diversity of ELF species compared to larger fragments (100 and 25 mm2). Moreover, ELF species isolated from the small thallus fragments covered all ELF taxa detected from the medium and the large fragments in this study. The use of two media—Bold’s basal medium (nutrient poor) and potato dextrose agar (nutrient rich)—supported the isolation of diverse ELF. Among the tested variables, size of thallus fragment more significantly influenced the isolation of diverse ELF than other three factors. Species composition and richness of ELF communities from different lichen thalli differed from each other in this study.
Collapse
Affiliation(s)
- Ji Ho Yang
- Korean Lichen Research Institute, Sunchon National University, 255 Jungang-Ro, Suncheon 57922, Korea; (J.H.Y.); (W.K.); (J.-J.W.); (H.K.)
| | - Seung-Yoon Oh
- Department of Biology and Chemistry, Changwon National University, 20 Changwondaehak-ro, Changwon 51140, Korea;
| | - Wonyong Kim
- Korean Lichen Research Institute, Sunchon National University, 255 Jungang-Ro, Suncheon 57922, Korea; (J.H.Y.); (W.K.); (J.-J.W.); (H.K.)
| | - Jung-Jae Woo
- Korean Lichen Research Institute, Sunchon National University, 255 Jungang-Ro, Suncheon 57922, Korea; (J.H.Y.); (W.K.); (J.-J.W.); (H.K.)
| | - Hyeonjae Kim
- Korean Lichen Research Institute, Sunchon National University, 255 Jungang-Ro, Suncheon 57922, Korea; (J.H.Y.); (W.K.); (J.-J.W.); (H.K.)
| | - Jae-Seoun Hur
- Korean Lichen Research Institute, Sunchon National University, 255 Jungang-Ro, Suncheon 57922, Korea; (J.H.Y.); (W.K.); (J.-J.W.); (H.K.)
- Correspondence: ; Tel.: +82-61-750-3383
| |
Collapse
|
25
|
Franzetti A, Pittino F, Gandolfi I, Azzoni RS, Diolaiuti G, Smiraglia C, Pelfini M, Compostella C, Turchetti B, Buzzini P, Ambrosini R. Early ecological succession patterns of bacterial, fungal and plant communities along a chronosequence in a recently deglaciated area of the Italian Alps. FEMS Microbiol Ecol 2021; 96:5894918. [PMID: 32815995 DOI: 10.1093/femsec/fiaa165] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2020] [Accepted: 08/12/2020] [Indexed: 12/31/2022] Open
Abstract
In this study, the early ecological succession patterns of Forni Glacier (Ortles-Cevedale group, Italian Alps) forefield along an 18-year long chronosequence (with a temporal resolution of 1 year) has been reported. Bacterial and fungal community structures were inferred by high-throughput sequencing of 16S rRNA gene and ITS, respectively. In addition, the occurrence of both herbaceous and arboreous plants was also recorded at each plot. A significant decrease of alpha-diversity in more recently deglaciated areas was observed for both bacteria and plants. Time since deglaciation and pH affected the structure of both fungal and bacterial communities. Pioneer plants could be a major source of colonization for both bacterial and fungal communities. Consistently, some of the most abundant bacterial taxa and some of those significantly varying with pH along the chronosequence (Polaromonas, Granulicella, Thiobacillus, Acidiferrobacter) are known to be actively involved in rock-weathering processes due to their chemolithotrophic metabolism, thus suggesting that the early phase of the chronosequence could be mainly shaped by the biologically controlled bioavailability of metals and inorganic compounds. Fungal communities were dominated by ascomycetous filamentous fungi and basidiomycetous yeasts. Their role as cold-adapted organic matter decomposers, due to their heterotrophic metabolism, was suggested.
Collapse
Affiliation(s)
- A Franzetti
- Department of Earth and Environmental Sciences (DISAT) - University of Milano-Bicocca, Milano, Italy
| | - F Pittino
- Department of Earth and Environmental Sciences (DISAT) - University of Milano-Bicocca, Milano, Italy
| | - I Gandolfi
- Department of Earth and Environmental Sciences (DISAT) - University of Milano-Bicocca, Milano, Italy
| | - R S Azzoni
- Department of Environmental Science and Policy, University of Milano, Milano, Italy
| | - G Diolaiuti
- Department of Environmental Science and Policy, University of Milano, Milano, Italy
| | - C Smiraglia
- Department of Earth Science "Ardito Desio", University of Milano, Milano, Italy
| | - M Pelfini
- Department of Earth Science "Ardito Desio", University of Milano, Milano, Italy
| | - C Compostella
- Department of Earth Science "Ardito Desio", University of Milano, Milano, Italy
| | - B Turchetti
- Department of Agricultural, Food and Environmental Sciences, University of Perugia, Perugia, Italy
| | - P Buzzini
- Department of Agricultural, Food and Environmental Sciences, University of Perugia, Perugia, Italy
| | - R Ambrosini
- Department of Environmental Science and Policy, University of Milano, Milano, Italy
| |
Collapse
|
26
|
G Rathod P, Mishra B, Thakur A, S Loomba P, Sharma A, Bajaj A, Das M, Bhasin A. Cerebral phaeohyphomycosis due to Cladophialophora bantiana in an immunocompetent individual: A case report and brief review of literature. Curr Med Mycol 2021; 6:52-57. [PMID: 33628983 PMCID: PMC7888520 DOI: 10.18502/cmm.6.2.2693] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022] Open
Abstract
Background and Purpose Fungal infections of the central nervous system (CNS) are life-threatening conditions that are frequently misdiagnosed with bacterial and viral CNS infections. Cerebral phaeohyphomycosis is a cerebral infection caused by dematiaceous fungi, especially Cladophialophora bantiana. Very few cases of fungal CNS infection have been reported across the world. High clinical suspicion should be cast for the patients with brain abscess that do not respond to conventional antibiotic therapy. Case report We report a case of a 21-year-old male presenting with headache, seizures and weakness in the limbs. Radiological examination revealed multiple brain abscesses. After surgical excision and laboratory evaluation, it was found to be caused by C. bantiana. The patient's outcome was good with surgical excision and voriconazole therapy. Conclusion Brain abscess caused by C. bantiana is on rise, especially in immunocompromised groups. Thus, high clinical suspicion, accurate diagnosis and management are the fundamentals for good prognosis.
Collapse
Affiliation(s)
- Prachala G Rathod
- Department of Microbiology, Govind Ballabh Pant Institute of Postgraduate Medical Education and Research, New Delhi, India
| | - Bibhabati Mishra
- Department of Microbiology, Govind Ballabh Pant Institute of Postgraduate Medical Education and Research, New Delhi, India
| | - Archana Thakur
- Department of Microbiology, Govind Ballabh Pant Institute of Postgraduate Medical Education and Research, New Delhi, India
| | - Poonam S Loomba
- Department of Microbiology, Govind Ballabh Pant Institute of Postgraduate Medical Education and Research, New Delhi, India
| | - Abha Sharma
- Department of Microbiology, Govind Ballabh Pant Institute of Postgraduate Medical Education and Research, New Delhi, India
| | - Ashish Bajaj
- Department of Microbiology, Govind Ballabh Pant Institute of Postgraduate Medical Education and Research, New Delhi, India
| | - Madhusmita Das
- Department of Microbiology, Govind Ballabh Pant Institute of Postgraduate Medical Education and Research, New Delhi, India
| | - Ashna Bhasin
- Department of Microbiology, Govind Ballabh Pant Institute of Postgraduate Medical Education and Research, New Delhi, India
| |
Collapse
|
27
|
You N, Xu J, Wang L, Zhuo L, Zhou J, Song Y, Ali A, Luo Y, Yang J, Yang W, Zheng M, Xu J, Shao L, Shi J. Fecal Fungi Dysbiosis in Nonalcoholic Fatty Liver Disease. Obesity (Silver Spring) 2021; 29:350-358. [PMID: 33491316 DOI: 10.1002/oby.23073] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 07/14/2020] [Revised: 09/28/2020] [Accepted: 10/11/2020] [Indexed: 11/08/2022]
Abstract
OBJECTIVE Nonalcoholic fatty liver disease (NAFLD) can systematically harm more aspects of human health than just the liver. In addition to the potential roles of the gut microbiota in NAFLD, commensal fungi can functionally replace intestinal bacteria in maintaining the host immune response in the gut by reversing disease susceptibility. Therefore, gut commensal fungi should be studied to help understand NAFLD. METHODS The fungal compositions of 79 patients with NAFLD and 34 matched healthy subjects were studied via internal transcribed spacer sequencing. In the NAFLD group, 32 patients underwent liver biopsies to evaluate the associations between gut fungi and NAFLD development. RESULTS The fungal microbiota distribution was skewed in the patients with NAFLD. The relative abundances of Talaromyces, Paraphaeosphaeria, Lycoperdon, Curvularia, Phialemoniopsis, Paraboeremia, Sarcinomyces, Cladophialophora, and Sordaria were higher in patients with NAFLD, whereas the abundances of Leptosphaeria, Pseudopithomyces, and Fusicolla were decreased. Patients with NAFLD exhibited more co-occurring fungal intrakingdom correlations. Several fungi were found to be associated with liver injury, lipid metabolism, and the development of NAFLD. CONCLUSIONS This study found that gut fungi may play some roles in NAFLD development. Research on gut fungi may be of great value in diagnosing and monitoring NAFLD.
Collapse
Affiliation(s)
- Ningning You
- Department of Gastroenterology, Taizhou Hospital of Zhejiang Province, Affiliated Hospital of Wenzhou Medical University, Taizhou, Zhejiang, China
- Department of Hepatology, The Affiliated Hospital of Hangzhou Normal University, Hangzhou, Zhejiang, China
| | - Jiali Xu
- Department of Hepatology, The Affiliated Hospital of Hangzhou Normal University, Hangzhou, Zhejiang, China
| | - Liyan Wang
- Fourth Clinical Medicine College, Zhejiang Chinese Medical University, Zhejiang, China
| | - Lili Zhuo
- Department of Hepatology, The Affiliated Hospital of Hangzhou Normal University, Hangzhou, Zhejiang, China
| | - Jingxin Zhou
- Department of Hematology, Suqian First People's Hospital, Suqian, Jiangsu, China
| | - Yu Song
- Fourth Clinical Medicine College, Zhejiang Chinese Medical University, Zhejiang, China
| | - Aliaweis Ali
- Department of Hepatology, The Affiliated Hospital of Hangzhou Normal University, Hangzhou, Zhejiang, China
| | - Yan Luo
- Institute of Translational Medicine, The Affiliated Hospital of Hangzhou Normal University-Hangzhou Normal University, Hangzhou, Zhejiang, China
| | - Jin Yang
- Institute of Translational Medicine, The Affiliated Hospital of Hangzhou Normal University-Hangzhou Normal University, Hangzhou, Zhejiang, China
| | - Wenjun Yang
- Department of Hepatology, The Affiliated Hospital of Hangzhou Normal University, Hangzhou, Zhejiang, China
| | - Minghua Zheng
- Nonalcoholic Fatty Liver Disease Research Center, Department of Hepatology, The First Affiliated Hospital of Wenzhou Medical University, Wenzhou, Zhejiang, China
- Institute of Hepatology, Wenzhou Medical University, Wenzhou, Zhejiang, China
| | - Jing Xu
- Department of Endocrinology, Xinqiao Hospital, Army Medical University, Chongqing, China
| | - Li Shao
- Institute of Translational Medicine, The Affiliated Hospital of Hangzhou Normal University-Hangzhou Normal University, Hangzhou, Zhejiang, China
| | - Junping Shi
- Department of Hepatology, The Affiliated Hospital of Hangzhou Normal University, Hangzhou, Zhejiang, China
- Institute of Translational Medicine, The Affiliated Hospital of Hangzhou Normal University-Hangzhou Normal University, Hangzhou, Zhejiang, China
| |
Collapse
|
28
|
Boonmee S, Wanasinghe DN, Calabon MS, Huanraluek N, Chandrasiri SKU, Jones GEB, Rossi W, Leonardi M, Singh SK, Rana S, Singh PN, Maurya DK, Lagashetti AC, Choudhary D, Dai YC, Zhao CL, Mu YH, Yuan HS, He SH, Phookamsak R, Jiang HB, Martín MP, Dueñas M, Telleria MT, Kałucka IL, Jagodziński AM, Liimatainen K, Pereira DS, Phillips AJL, Suwannarach N, Kumla J, Khuna S, Lumyong S, Potter TB, Shivas RG, Sparks AH, Vaghefi N, Abdel-Wahab MA, Abdel-Aziz FA, Li GJ, Lin WF, Singh U, Bhatt RP, Lee HB, Nguyen TTT, Kirk PM, Dutta AK, Acharya K, Sarma VV, Niranjan M, Rajeshkumar KC, Ashtekar N, Lad S, Wijayawardene NN, Bhat DJ, Xu RJ, Wijesinghe SN, Shen HW, Luo ZL, Zhang JY, Sysouphanthong P, Thongklang N, Bao DF, Aluthmuhandiram JVS, Abdollahzadeh J, Javadi A, Dovana F, Usman M, Khalid AN, Dissanayake AJ, Telagathoti A, Probst M, Peintner U, Garrido-Benavent I, Bóna L, Merényi Z, Boros L, Zoltán B, Stielow JB, Jiang N, Tian CM, Shams E, Dehghanizadeh F, Pordel A, Javan-Nikkhah M, Denchev TT, Denchev CM, Kemler M, Begerow D, Deng CY, Harrower E, Bozorov T, Kholmuradova T, Gafforov Y, Abdurazakov A, Xu JC, Mortimer PE, Ren GC, Jeewon R, Maharachchikumbura SSN, Phukhamsakda C, Mapook A, Hyde KD. Fungal diversity notes 1387-1511: taxonomic and phylogenetic contributions on genera and species of fungal taxa. FUNGAL DIVERS 2021; 111:1-335. [PMID: 34899100 PMCID: PMC8648402 DOI: 10.1007/s13225-021-00489-3] [Citation(s) in RCA: 64] [Impact Index Per Article: 21.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2021] [Accepted: 08/10/2021] [Indexed: 01/01/2023]
Abstract
This article is the 13th contribution in the Fungal Diversity Notes series, wherein 125 taxa from four phyla, ten classes, 31 orders, 69 families, 92 genera and three genera incertae sedis are treated, demonstrating worldwide and geographic distribution. Fungal taxa described and illustrated in the present study include three new genera, 69 new species, one new combination, one reference specimen and 51 new records on new hosts and new geographical distributions. Three new genera, Cylindrotorula (Torulaceae), Scolecoleotia (Leotiales genus incertae sedis) and Xenovaginatispora (Lindomycetaceae) are introduced based on distinct phylogenetic lineages and unique morphologies. Newly described species are Aspergillus lannaensis, Cercophora dulciaquae, Cladophialophora aquatica, Coprinellus punjabensis, Cortinarius alutarius, C. mammillatus, C. quercoflocculosus, Coryneum fagi, Cruentomycena uttarakhandina, Cryptocoryneum rosae, Cyathus uniperidiolus, Cylindrotorula indica, Diaporthe chamaeropicola, Didymella azollae, Diplodia alanphillipsii, Dothiora coronicola, Efibula rodriguezarmasiae, Erysiphe salicicola, Fusarium queenslandicum, Geastrum gorgonicum, G. hansagiense, Helicosporium sexualis, Helminthosporium chiangraiensis, Hongkongmyces kokensis, Hydrophilomyces hydraenae, Hygrocybe boertmannii, Hyphoderma australosetigerum, Hyphodontia yunnanensis, Khaleijomyces umikazeana, Laboulbenia divisa, Laboulbenia triarthronis, Laccaria populina, Lactarius pallidozonarius, Lepidosphaeria strobelii, Longipedicellata megafusiformis, Lophiotrema lincangensis, Marasmius benghalensis, M. jinfoshanensis, M. subtropicus, Mariannaea camelliae, Melanographium smilaxii, Microbotryum polycnemoides, Mimeomyces digitatus, Minutisphaera thailandensis, Mortierella solitaria, Mucor harpali, Nigrograna jinghongensis, Odontia huanrenensis, O. parvispina, Paraconiothyrium ajrekarii, Parafuscosporella niloticus, Phaeocytostroma yomensis, Phaeoisaria synnematicus, Phanerochaete hainanensis, Pleopunctum thailandicum, Pleurotheciella dimorphospora, Pseudochaetosphaeronema chiangraiense, Pseudodactylaria albicolonia, Rhexoacrodictys nigrospora, Russula paravioleipes, Scolecoleotia eriocamporesi, Seriascoma honghense, Synandromyces makranczyi, Thyridaria aureobrunnea, Torula lancangjiangensis, Tubeufia longihelicospora, Wicklowia fusiformispora, Xenovaginatispora phichaiensis and Xylaria apiospora. One new combination, Pseudobactrodesmium stilboideus is proposed. A reference specimen of Comoclathris permunda is designated. New host or distribution records are provided for Acrocalymma fici, Aliquandostipite khaoyaiensis, Camarosporidiella laburni, Canalisporium caribense, Chaetoscutula juniperi, Chlorophyllum demangei, C. globosum, C. hortense, Cladophialophora abundans, Dendryphion hydei, Diaporthe foeniculina, D. pseudophoenicicola, D. pyracanthae, Dictyosporium pandanicola, Dyfrolomyces distoseptatus, Ernakulamia tanakae, Eutypa flavovirens, E. lata, Favolus septatus, Fusarium atrovinosum, F. clavum, Helicosporium luteosporum, Hermatomyces nabanheensis, Hermatomyces sphaericoides, Longipedicellata aquatica, Lophiostoma caudata, L. clematidis-vitalbae, Lophiotrema hydei, L. neoarundinaria, Marasmiellus palmivorus, Megacapitula villosa, Micropsalliota globocystis, M. gracilis, Montagnula thailandica, Neohelicosporium irregulare, N. parisporum, Paradictyoarthrinium diffractum, Phaeoisaria aquatica, Poaceascoma taiwanense, Saproamanita manicata, Spegazzinia camelliae, Submersispora variabilis, Thyronectria caudata, T. mackenziei, Tubeufia chiangmaiensis, T. roseohelicospora, Vaginatispora nypae, Wicklowia submersa, Xanthagaricus necopinatus and Xylaria haemorrhoidalis. The data presented herein are based on morphological examination of fresh specimens, coupled with analysis of phylogenetic sequence data to better integrate taxa into appropriate taxonomic ranks and infer their evolutionary relationships.
Collapse
Affiliation(s)
- Saranyaphat Boonmee
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- School of Science, Mae Fah Luang University, Chiang Rai, 57100 Thailand
| | - Dhanushka N. Wanasinghe
- CAS Key Laboratory for Plant Biodiversity and Biogeography of East Asia (KLPB), Kunming Institute of Botany, Chinese Academy of Science, Kunming, 650201 Yunnan People’s Republic of China
- CIFOR-ICRAF China Program, World Agroforestry (ICRAF), Kunming, 650201 Yunnan People’s Republic of China
- Honghe Center for Mountain Futures, Kunming Institute of Botany, Honghe County, Kunming, 654400 Yunnan People’s Republic of China
| | - Mark S. Calabon
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- School of Science, Mae Fah Luang University, Chiang Rai, 57100 Thailand
| | - Naruemon Huanraluek
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai, 57100 Thailand
| | - Sajini K. U. Chandrasiri
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- School of Science, Mae Fah Luang University, Chiang Rai, 57100 Thailand
| | - Gareth E. B. Jones
- Department of Botany and Microbiology, College of Science, King Saud University, P.O. Box 2455, Riyadh, 11451 Saudi Arabia
| | - Walter Rossi
- Section Environmental Sciences, Department MeSVA, University of L’Aquila, 67100 Coppito, AQ Italy
| | - Marco Leonardi
- Section Environmental Sciences, Department MeSVA, University of L’Aquila, 67100 Coppito, AQ Italy
| | - Sanjay K. Singh
- National Fungal Culture Collection of India (NFCCI), Biodiversity and Palaeobiology Group, MACS Agharkar Research Institute, G.G. Agarkar Road, Pune, 411 004 India
| | - Shiwali Rana
- National Fungal Culture Collection of India (NFCCI), Biodiversity and Palaeobiology Group, MACS Agharkar Research Institute, G.G. Agarkar Road, Pune, 411 004 India
| | - Paras N. Singh
- National Fungal Culture Collection of India (NFCCI), Biodiversity and Palaeobiology Group, MACS Agharkar Research Institute, G.G. Agarkar Road, Pune, 411 004 India
| | - Deepak K. Maurya
- National Fungal Culture Collection of India (NFCCI), Biodiversity and Palaeobiology Group, MACS Agharkar Research Institute, G.G. Agarkar Road, Pune, 411 004 India
| | - Ajay C. Lagashetti
- National Fungal Culture Collection of India (NFCCI), Biodiversity and Palaeobiology Group, MACS Agharkar Research Institute, G.G. Agarkar Road, Pune, 411 004 India
| | - Deepika Choudhary
- National Fungal Culture Collection of India (NFCCI), Biodiversity and Palaeobiology Group, MACS Agharkar Research Institute, G.G. Agarkar Road, Pune, 411 004 India
| | - Yu-Cheng Dai
- Institute of Microbiology, School of Ecology and Nature Conservation, Beijing Forestry University, Beijing, 100083 People’s Republic of China
| | - Chang-Lin Zhao
- College of Biodiversity Conservation, Southwest Forestry University, Kunming, 650224 People’s Republic of China
| | - Yan-Hong Mu
- CAS Key Laboratory of Forest Ecology and Management, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang, 110164 People’s Republic of China
- University of the Chinese Academy of Sciences, Beijing, 100049 People’s Republic of China
| | - Hai-Sheng Yuan
- CAS Key Laboratory of Forest Ecology and Management, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang, 110164 People’s Republic of China
| | - Shuang-Hui He
- Institute of Microbiology, School of Ecology and Nature Conservation, Beijing Forestry University, Beijing, 100083 People’s Republic of China
| | - Rungtiwa Phookamsak
- CAS Key Laboratory for Plant Biodiversity and Biogeography of East Asia (KLPB), Kunming Institute of Botany, Chinese Academy of Science, Kunming, 650201 Yunnan People’s Republic of China
- CIFOR-ICRAF China Program, World Agroforestry (ICRAF), Kunming, 650201 Yunnan People’s Republic of China
- Honghe Center for Mountain Futures, Kunming Institute of Botany, Honghe County, Kunming, 654400 Yunnan People’s Republic of China
- Centre for Mountain Futures (CMF), Kunming Institute of Botany, Kunming, 650201 Yunnan People’s Republic of China
| | - Hong-Bo Jiang
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- School of Science, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- CAS Key Laboratory for Plant Biodiversity and Biogeography of East Asia (KLPB), Kunming Institute of Botany, Chinese Academy of Science, Kunming, 650201 Yunnan People’s Republic of China
| | - María P. Martín
- Department of Mycology, Real Jardín Botánico-CSIC, Plaza de Murillo 2, 28014 Madrid, Spain
| | - Margarita Dueñas
- Department of Mycology, Real Jardín Botánico-CSIC, Plaza de Murillo 2, 28014 Madrid, Spain
| | - M. Teresa Telleria
- Department of Mycology, Real Jardín Botánico-CSIC, Plaza de Murillo 2, 28014 Madrid, Spain
| | - Izabela L. Kałucka
- Department of Algology and Mycology, Faculty of Biology and Environmental Protection, University of Lodz, Banacha 12/16, 90-237 Łódź, Poland
| | | | - Kare Liimatainen
- Jodrell Laboratory, Royal Botanic Gardens, Kew, Richmond, TW9 3DS Surrey UK
| | - Diana S. Pereira
- Faculdade de Ciências, Biosystems and Integrative Sciences Institute (BioISI), Universidade de Lisboa, Campo Grande, 1749-016 Lisbon, Portugal
| | - Alan J. L. Phillips
- Faculdade de Ciências, Biosystems and Integrative Sciences Institute (BioISI), Universidade de Lisboa, Campo Grande, 1749-016 Lisbon, Portugal
| | - Nakarin Suwannarach
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai, 50200 Thailand
- Research Center of Microbial Diversity and Sustainable Utilization, Faculty of Science, Chiang Mai University, Chiang Mai, 50200 Thailand
| | - Jaturong Kumla
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai, 50200 Thailand
- Research Center of Microbial Diversity and Sustainable Utilization, Faculty of Science, Chiang Mai University, Chiang Mai, 50200 Thailand
| | - Surapong Khuna
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai, 50200 Thailand
- Research Center of Microbial Diversity and Sustainable Utilization, Faculty of Science, Chiang Mai University, Chiang Mai, 50200 Thailand
| | - Saisamorn Lumyong
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai, 50200 Thailand
- Research Center of Microbial Diversity and Sustainable Utilization, Faculty of Science, Chiang Mai University, Chiang Mai, 50200 Thailand
- Academy of Science, The Royal Society of Thailand, 10300 Bangkok, Thailand
| | - Tarynn B. Potter
- Centre for Crop Health, University of Southern Queensland, Toowoomba, QLD 4350 Australia
| | - Roger G. Shivas
- Centre for Crop Health, University of Southern Queensland, Toowoomba, QLD 4350 Australia
- Department of Agriculture and Fisheries, Dutton Park, QLD 4102 Australia
| | - Adam H. Sparks
- Centre for Crop Health, University of Southern Queensland, Toowoomba, QLD 4350 Australia
- Department of Primary Industries and Regional Development, Bentley Delivery Centre, Locked Bag 4, Bentley, WA 6983 Australia
| | - Niloofar Vaghefi
- Centre for Crop Health, University of Southern Queensland, Toowoomba, QLD 4350 Australia
| | - Mohamed A. Abdel-Wahab
- Department of Botany and Microbiology, Faculty of Science, Sohag University, Sohag, 82524 Egypt
| | - Faten A. Abdel-Aziz
- Department of Botany and Microbiology, Faculty of Science, Sohag University, Sohag, 82524 Egypt
| | - Guo-Jie Li
- Key Laboratory of Vegetable Germplasm Innovation and Utilization of Hebei, Collaborative Innovation Center of Vegetable, College of Horticulture, Hebei Agricultural University, No 2596 South Lekai Rd, Lianchi District, Baoding, 071001 Hebei China
| | - Wen-Fei Lin
- Institute of Edible and Medicinal Fungi, College of Life Science, Zhejiang University, 866 Yuhangtang Rd, Xihu District, Hangzhou, 310058 Zhejiang China
| | - Upendra Singh
- Department of Botany & Microbiology, HNB Garhwal University, Uttarakhand 246174 Srinagar, Garhwal, India
| | - Rajendra P. Bhatt
- Department of Botany & Microbiology, HNB Garhwal University, Uttarakhand 246174 Srinagar, Garhwal, India
| | - Hyang Burm Lee
- Environmental Microbiology Lab, Department of Agricultural Biological Chemistry, College of Agriculture & Life Sciences, Chonnam National University, Gwangju, 61186 Korea
| | - Thuong T. T. Nguyen
- Environmental Microbiology Lab, Department of Agricultural Biological Chemistry, College of Agriculture & Life Sciences, Chonnam National University, Gwangju, 61186 Korea
| | - Paul M. Kirk
- Biodiversity Informatics and Spatial Analysis, Royal Botanic Gardens Kew, Richmond, TW9 3DS Surrey UK
| | - Arun Kumar Dutta
- Department of Botany, West Bengal State University, North-24-Parganas, Barasat, West Bengal PIN- 700126 India
- Molecular and Applied Mycology and Plant Pathology Laboratory, Department of Botany, University of Calcutta, 35, Ballygunge Circular Road, Kolkata, West Bengal 700019 India
| | - Krishnendu Acharya
- Molecular and Applied Mycology and Plant Pathology Laboratory, Department of Botany, University of Calcutta, 35, Ballygunge Circular Road, Kolkata, West Bengal 700019 India
| | - V. Venkateswara Sarma
- Fungal Biotechnology Laboratory, Department of Biotechnology, Pondicherry University, Kalapet, Puducherry, 605014 India
| | - M. Niranjan
- Fungal Biotechnology Laboratory, Department of Biotechnology, Pondicherry University, Kalapet, Puducherry, 605014 India
- Department of Botany, Rajiv Gandhi University, Rono Hills, Doimukh, Itanagar, Arunachal Pradesh 791112 India
| | - Kunhiraman C. Rajeshkumar
- National Fungal Culture Collection of India (NFCCI), Biodiversity and Palaeobiology Group, MACS Agharkar Research Institute, G.G. Agarkar Road, Pune, 411 004 India
| | - Nikhil Ashtekar
- National Fungal Culture Collection of India (NFCCI), Biodiversity and Palaeobiology Group, MACS Agharkar Research Institute, G.G. Agarkar Road, Pune, 411 004 India
| | - Sneha Lad
- National Fungal Culture Collection of India (NFCCI), Biodiversity and Palaeobiology Group, MACS Agharkar Research Institute, G.G. Agarkar Road, Pune, 411 004 India
| | - Nalin N. Wijayawardene
- Center for Yunnan Plateau Biological Resources Protection and Utilization, College of Biological Resource and Food Engineering, Qujing Normal University, Qujing, 655011 Yunnan People’s Republic of China
| | - Darbe J. Bhat
- Azad Housing Society, No. 128/1-J, Goa Velha, Curca, Goa India
| | - Rong-Ju Xu
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- School of Science, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- CAS Key Laboratory for Plant Biodiversity and Biogeography of East Asia (KLPB), Kunming Institute of Botany, Chinese Academy of Science, Kunming, 650201 Yunnan People’s Republic of China
| | - Subodini N. Wijesinghe
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- School of Science, Mae Fah Luang University, Chiang Rai, 57100 Thailand
| | - Hong-Wei Shen
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- School of Science, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- College of Agriculture and Biological Sciences, Dali University, Dali, 671003 People’s Republic of China
| | - Zong-Long Luo
- College of Agriculture and Biological Sciences, Dali University, Dali, 671003 People’s Republic of China
| | - Jing-Yi Zhang
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- School of Science, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- School of Food and Pharmaceutical Engineering, Guizhou Institute of Technology, Guiyang, 550003 People’s Republic of China
| | - Phongeun Sysouphanthong
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- School of Science, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- Biotechnology and Ecology Institute, Ministry of Agriculture and Forestry, P.O. Box: 811, Vientiane Capital, Lao People’s Democratic Republic
| | - Naritsada Thongklang
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- School of Science, Mae Fah Luang University, Chiang Rai, 57100 Thailand
| | - Dan-Feng Bao
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- College of Agriculture and Biological Sciences, Dali University, Dali, 671003 People’s Republic of China
- Department of Entomology and Plant Pathology, Faculty of Agriculture, Chiang Mai University, Chiang Mai, 50200 Thailand
| | - Janith V. S. Aluthmuhandiram
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- School of Science, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- Beijing Key Laboratory of Environment Friendly Management On Fruit Diseases and Pests in North China, Institute of Plant and Environment Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing, 100097 People’s Republic of China
| | - Jafar Abdollahzadeh
- Department of Plant Protection, Agriculture Faculty, University of Kurdistan, P.O. Box 416, Sanandaj, Iran
| | - Alireza Javadi
- Department of Botany, Iranian Research Institute of Plant Protection, P.O. Box 1454, 19395 Tehran, Iran
| | | | - Muhammad Usman
- Fungal Biology and Systematics Research Laboratory, Department of Botany, University of the Punjab, Quaid-e-Azam Campus, Lahore, 54590 Pakistan
| | - Abdul Nasir Khalid
- Fungal Biology and Systematics Research Laboratory, Department of Botany, University of the Punjab, Quaid-e-Azam Campus, Lahore, 54590 Pakistan
| | - Asha J. Dissanayake
- School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu, 611731 People’s Republic of China
| | - Anusha Telagathoti
- Institute of Microbiology, University of Innsbruck, Technikerstrasse 25, 6020 Innsbruck, Austria
| | - Maraike Probst
- Institute of Microbiology, University of Innsbruck, Technikerstrasse 25, 6020 Innsbruck, Austria
| | - Ursula Peintner
- Institute of Microbiology, University of Innsbruck, Technikerstrasse 25, 6020 Innsbruck, Austria
| | - Isaac Garrido-Benavent
- Department of Botany and Geology (Fac. CC. Biológicas) & Institut Cavanilles de Biodiversitat I Biologia Evolutiva (ICBIBE), Universitat de València, C/ Dr. Moliner 50, Burjassot, 46100 València, Spain
| | - Lilla Bóna
- Department of Plant Physiology and Molecular Plant Biology, Eötvös Loránd University, Budapest, 1117 Hungary
| | - Zsolt Merényi
- Institute of Biochemistry, Synthetic and Systems Biology Unit, Biological Research Centre, Szeged, 6726 Hungary
| | | | - Bratek Zoltán
- Department of Plant Physiology and Molecular Plant Biology, Eötvös Loránd University, Budapest, 1117 Hungary
| | - J. Benjamin Stielow
- Centre of Expertise in Mycology of Radboud University Medical Centre/Canisius Wilhelmina Hospital, Nijmegen, The Netherlands
- Thermo Fisher Diagnostics, Specialty Diagnostics Group, Landsmeer, The Netherlands
| | - Ning Jiang
- The Key Laboratory for Silviculture and Conservation of the Ministry of Education, Beijing Forestry University, Beijing, 100083 People’s Republic of China
| | - Cheng-Ming Tian
- The Key Laboratory for Silviculture and Conservation of the Ministry of Education, Beijing Forestry University, Beijing, 100083 People’s Republic of China
| | - Esmaeil Shams
- Department of Plant Protection, College of Agriculture and Natural Resources, University of Tehran, Karaj, Iran
| | - Farzaneh Dehghanizadeh
- Department of Agricultural Biotechnology, College of Agriculture Engineering, Isfahan University of Technology, Isfahan, Iran
| | - Adel Pordel
- Plant Protection Research Department, Baluchestan Agricultural and Natural Resources Research and Education Center, AREEO, Iranshahr, Iran
| | - Mohammad Javan-Nikkhah
- Department of Plant Protection, College of Agriculture and Natural Resources, University of Tehran, Karaj, Iran
| | - Teodor T. Denchev
- Institute of Biodiversity and Ecosystem Research, Bulgarian Academy of Sciences, 2 Gagarin St., 1113 Sofia, Bulgaria
| | - Cvetomir M. Denchev
- Institute of Biodiversity and Ecosystem Research, Bulgarian Academy of Sciences, 2 Gagarin St., 1113 Sofia, Bulgaria
| | - Martin Kemler
- Evolution der Pflanzen und Pilze, Ruhr-Universität Bochum, ND 03, Universitätsstraße 150, 44801 Bochum, Germany
| | - Dominik Begerow
- Evolution der Pflanzen und Pilze, Ruhr-Universität Bochum, ND 03, Universitätsstraße 150, 44801 Bochum, Germany
| | - Chun-Ying Deng
- Guizhou Institute of Biology, Guizhou Academy of Sciences, Shanxi Road No. 1, Yunyan district, 550001 Guiyang, People’s Republic of China
| | | | - Tohir Bozorov
- Institute of Genetics and Plant Experimental Biology, Academy of Sciences of Republic of Uzbekistan, Yukori-Yuz, Kubray Ds, Tashkent, Uzbekistan 111226
| | - Tutigul Kholmuradova
- Laboratory of Mycology, Institute of Botany, Academy of Sciences of Republic of Uzbekistan, 32 Durmon Yuli Street, Tashkent, Uzbekistan 100125
| | - Yusufjon Gafforov
- Laboratory of Mycology, Institute of Botany, Academy of Sciences of Republic of Uzbekistan, 32 Durmon Yuli Street, Tashkent, Uzbekistan 100125
| | - Aziz Abdurazakov
- Laboratory of Mycology, Institute of Botany, Academy of Sciences of Republic of Uzbekistan, 32 Durmon Yuli Street, Tashkent, Uzbekistan 100125
- Department of Ecology and Botany, Faculty of Natural Sciences, Andijan State University, 12 University Street, Andijan, Uzbekistan 170100
| | - Jian-Chu Xu
- CAS Key Laboratory for Plant Biodiversity and Biogeography of East Asia (KLPB), Kunming Institute of Botany, Chinese Academy of Science, Kunming, 650201 Yunnan People’s Republic of China
- CIFOR-ICRAF China Program, World Agroforestry (ICRAF), Kunming, 650201 Yunnan People’s Republic of China
- Honghe Center for Mountain Futures, Kunming Institute of Botany, Honghe County, Kunming, 654400 Yunnan People’s Republic of China
- Centre for Mountain Futures (CMF), Kunming Institute of Botany, Kunming, 650201 Yunnan People’s Republic of China
| | - Peter E. Mortimer
- CAS Key Laboratory for Plant Biodiversity and Biogeography of East Asia (KLPB), Kunming Institute of Botany, Chinese Academy of Science, Kunming, 650201 Yunnan People’s Republic of China
- CIFOR-ICRAF China Program, World Agroforestry (ICRAF), Kunming, 650201 Yunnan People’s Republic of China
| | - Guang-Cong Ren
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- School of Science, Mae Fah Luang University, Chiang Rai, 57100 Thailand
| | - Rajesh Jeewon
- Department of Health Sciences, Faculty of Medicine and Health Sciences, University of Mauritius, Réduit, Republic of Mauritius
| | - Sajeewa S. N. Maharachchikumbura
- School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu, 611731 People’s Republic of China
| | - Chayanard Phukhamsakda
- Engineering Research Center of Chinese Ministry of Education for Edible and Medicinal Fungi, Jilin Agricultural University, Changchun, 130118 China
| | - Ausana Mapook
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai, 57100 Thailand
| | - Kevin D. Hyde
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai, 57100 Thailand
- CAS Key Laboratory for Plant Biodiversity and Biogeography of East Asia (KLPB), Kunming Institute of Botany, Chinese Academy of Science, Kunming, 650201 Yunnan People’s Republic of China
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai, 50200 Thailand
- Research Center of Microbial Diversity and Sustainable Utilization, Faculty of Science, Chiang Mai University, Chiang Mai, 50200 Thailand
- Innovative Institute of Plant Health, Zhongkai University of Agriculture and Engineering, Haizhu District, Guangzhou, 510225 People’s Republic of China
| |
Collapse
|
29
|
Muggia L, Ametrano CG, Sterflinger K, Tesei D. An Overview of Genomics, Phylogenomics and Proteomics Approaches in Ascomycota. Life (Basel) 2020; 10:E356. [PMID: 33348904 PMCID: PMC7765829 DOI: 10.3390/life10120356] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2020] [Revised: 12/10/2020] [Accepted: 12/12/2020] [Indexed: 12/26/2022] Open
Abstract
Fungi are among the most successful eukaryotes on Earth: they have evolved strategies to survive in the most diverse environments and stressful conditions and have been selected and exploited for multiple aims by humans. The characteristic features intrinsic of Fungi have required evolutionary changes and adaptations at deep molecular levels. Omics approaches, nowadays including genomics, metagenomics, phylogenomics, transcriptomics, metabolomics, and proteomics have enormously advanced the way to understand fungal diversity at diverse taxonomic levels, under changeable conditions and in still under-investigated environments. These approaches can be applied both on environmental communities and on individual organisms, either in nature or in axenic culture and have led the traditional morphology-based fungal systematic to increasingly implement molecular-based approaches. The advent of next-generation sequencing technologies was key to boost advances in fungal genomics and proteomics research. Much effort has also been directed towards the development of methodologies for optimal genomic DNA and protein extraction and separation. To date, the amount of proteomics investigations in Ascomycetes exceeds those carried out in any other fungal group. This is primarily due to the preponderance of their involvement in plant and animal diseases and multiple industrial applications, and therefore the need to understand the biological basis of the infectious process to develop mechanisms for biologic control, as well as to detect key proteins with roles in stress survival. Here we chose to present an overview as much comprehensive as possible of the major advances, mainly of the past decade, in the fields of genomics (including phylogenomics) and proteomics of Ascomycota, focusing particularly on those reporting on opportunistic pathogenic, extremophilic, polyextremotolerant and lichenized fungi. We also present a review of the mostly used genome sequencing technologies and methods for DNA sequence and protein analyses applied so far for fungi.
Collapse
Affiliation(s)
- Lucia Muggia
- Department of Life Sciences, University of Trieste, 34127 Trieste, Italy
| | - Claudio G. Ametrano
- Grainger Bioinformatics Center, Department of Science and Education, The Field Museum, Chicago, IL 60605, USA;
| | - Katja Sterflinger
- Academy of Fine Arts Vienna, Institute of Natual Sciences and Technology in the Arts, 1090 Vienna, Austria;
| | - Donatella Tesei
- Department of Biotechnology, University of Natural Resources and Life Sciences, 1190 Vienna, Austria;
| |
Collapse
|
30
|
Villena CIF, Gomes RR, Fernandes L, Florencio CS, Bombassaro A, Grisolia ME, da Silva Trindade E, de Hoog S, Vicente VA. Agrobacterium tumefaciens-Mediated Transformation of Fonsecaea monophora and Fonsecaea erecta for Host-Environment Interaction Studies. J Fungi (Basel) 2020; 6:jof6040325. [PMID: 33265950 PMCID: PMC7711947 DOI: 10.3390/jof6040325] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2020] [Revised: 11/15/2020] [Accepted: 11/17/2020] [Indexed: 11/16/2022] Open
Abstract
The fungal genus Fonsecaea contains etiological agents of human chromoblastomycosis, a (sub)tropical, (sub)cutaneous implantation disease caused by plant contact. The invasive potential differs significantly between species. Infections by Fonsecaea monophora are believed to originate from the environment and the species has been reported as one of the main causative agents of the disease, but also of cases of primary brain infection. The epidemiology of the disease has not been fully elucidated and questions related to its infection route and virulence are still to be clarified. The environmental species Fonsecaea erecta was isolated from organic material and living plants in endemic areas for chromoblastomycosis in Brazil. The present paper describes Agrobacteriumtumefaciens-mediated transformation (AMT) of the environmental species F. erecta and the pathogenic species F. monophora. We propose the use of Agrobacterium transformation for future gene function studies related to Fonsecaea virulence and pathogenicity. We evaluated the co-cultivation ratios 1:1, 10:1 and 100:1 (Agrobacterium:conidia) at 28 °C during 72 h. pAD1625 and pCAMDsRed plasmids were inserted into both species. Confirmation of transformation was realized by hph gene amplification and Southern blot determined the amount of foreign DNA integrated into the genome. In order to evaluate a potential link between environmental and clinical strains, we obtained red fluorescent transformants after pCAMDsRed insertion. We observed by confocal fluorescence microscopy that both F. monophora and F. erecta were able to colonize the palm Bactris gasipaes, penetrating the epidermis. These results contribute to understanding the ability of Fonsecaea species to adapt to different environmental and host conditions.
Collapse
Affiliation(s)
- Cristina Isabel Ferrer Villena
- Engineering Bioprocess and Biotechnology Graduate Program, Department of Bioprocess Engineering and Biotechnology, Federal University of Paraná, Curitiba 81530-000, Brazil; (C.I.F.V.); (M.E.G.)
| | - Renata Rodrigues Gomes
- Microbiology, Parasitology and Pathology Graduate Program, Department of Pathology, Federal University of Paraná, Curitiba 81530-000, Brazil; (R.R.G.); (A.B.)
| | - Larissa Fernandes
- Microbial Biology Graduate Program, Department of Cell Biology, University of Brasília, Brasilia 70910-900, Brazil; (L.F.); (C.S.F.)
| | - Camille Silva Florencio
- Microbial Biology Graduate Program, Department of Cell Biology, University of Brasília, Brasilia 70910-900, Brazil; (L.F.); (C.S.F.)
| | - Amanda Bombassaro
- Microbiology, Parasitology and Pathology Graduate Program, Department of Pathology, Federal University of Paraná, Curitiba 81530-000, Brazil; (R.R.G.); (A.B.)
- Department of Medical Microbiology, Center of Expertise in Mycology of Radboud University Medical Center/Canisius Wilhelmina Hospital, 6525GA Nijmegen, The Netherlands
| | - Maria Eduarda Grisolia
- Engineering Bioprocess and Biotechnology Graduate Program, Department of Bioprocess Engineering and Biotechnology, Federal University of Paraná, Curitiba 81530-000, Brazil; (C.I.F.V.); (M.E.G.)
| | | | - Sybren de Hoog
- Microbiology, Parasitology and Pathology Graduate Program, Department of Pathology, Federal University of Paraná, Curitiba 81530-000, Brazil; (R.R.G.); (A.B.)
- Department of Medical Microbiology, Center of Expertise in Mycology of Radboud University Medical Center/Canisius Wilhelmina Hospital, 6525GA Nijmegen, The Netherlands
- Correspondence: (S.d.H.); (V.A.V.); Tel.: +31-683-087-882 (S.d.H.); +55-413-361-1704 (V.A.V.)
| | - Vania Aparecida Vicente
- Engineering Bioprocess and Biotechnology Graduate Program, Department of Bioprocess Engineering and Biotechnology, Federal University of Paraná, Curitiba 81530-000, Brazil; (C.I.F.V.); (M.E.G.)
- Microbiology, Parasitology and Pathology Graduate Program, Department of Pathology, Federal University of Paraná, Curitiba 81530-000, Brazil; (R.R.G.); (A.B.)
- Correspondence: (S.d.H.); (V.A.V.); Tel.: +31-683-087-882 (S.d.H.); +55-413-361-1704 (V.A.V.)
| |
Collapse
|
31
|
Mącik M, Gryta A, Sas-Paszt L, Frąc M. The Status of Soil Microbiome as Affected by the Application of Phosphorus Biofertilizer: Fertilizer Enriched with Beneficial Bacterial Strains. Int J Mol Sci 2020; 21:E8003. [PMID: 33121206 PMCID: PMC7663420 DOI: 10.3390/ijms21218003] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2020] [Revised: 10/21/2020] [Accepted: 10/23/2020] [Indexed: 01/05/2023] Open
Abstract
Regarding the unfavourable changes in agroecosystems resulting from the excessive application of mineral fertilizers, biopreparations containing live microorganisms are gaining increasing attention. We assumed that the application of phosphorus mineral fertilizer enriched with strains of beneficial microorganisms contribute to favourable changes in enzymatic activity and in the genetic and functional diversity of microbial populations inhabiting degraded soils. Therefore, in field experiments conditions, the effects of phosphorus fertilizer enriched with bacterial strains on the status of soil microbiome in two chemically degraded soil types (Brunic Arenosol - BA and Abruptic Luvisol - AL) were investigated. The field experiments included treatments with an optimal dose of phosphorus fertilizer (without microorganisms - FC), optimal dose of phosphorus fertilizer enriched with microorganisms including Paenibacillus polymyxa strain CHT114AB, Bacillus amyloliquefaciens strain AF75BB and Bacillus sp. strain CZP4/4 (FA100) and a dose of phosphorus fertilizer reduced by 40% and enriched with the above-mentioned bacteria (FA60). The analyzes performed included: the determination of the activity of the soil enzymes (protease, urease, acid phosphomonoesterase, β-glucosidase), the assessment of the functional diversity of microorganisms with the application of BIOLOGTM plates and the characterization of the genetic diversity of bacteria, archaea and fungi with multiplex terminal restriction fragment length polymorphism and next generation sequencing. The obtained results indicated that the application of phosphorus fertilizer enriched with microorganisms improved enzymatic activity, and the genetic and functional diversity of the soil microbial communities, however these effects were dependent on the soil type.
Collapse
Affiliation(s)
- Mateusz Mącik
- Institute of Agrophysics, Polish Academy of Sciences, Doświadczalna 4, 20-290 Lublin, Poland; (M.M.); (A.G.)
| | - Agata Gryta
- Institute of Agrophysics, Polish Academy of Sciences, Doświadczalna 4, 20-290 Lublin, Poland; (M.M.); (A.G.)
| | - Lidia Sas-Paszt
- Institute of Horticulture in Skierniewice, Pomologiczna 18, 96-100 Skierniewice, Poland;
| | - Magdalena Frąc
- Institute of Agrophysics, Polish Academy of Sciences, Doświadczalna 4, 20-290 Lublin, Poland; (M.M.); (A.G.)
| |
Collapse
|
32
|
Santos DWCL, Vicente VA, Weiss VA, de Hoog GS, Gomes RR, Batista EMM, Marques SG, de Queiroz-Telles F, Colombo AL, de Azevedo CDMPES. Chromoblastomycosis in an Endemic Area of Brazil: A Clinical-Epidemiological Analysis and a Worldwide Haplotype Network. J Fungi (Basel) 2020; 6:jof6040204. [PMID: 33022951 PMCID: PMC7711792 DOI: 10.3390/jof6040204] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2020] [Revised: 09/27/2020] [Accepted: 10/01/2020] [Indexed: 12/14/2022] Open
Abstract
Chromoblastomycosis (CBM) is a neglected implantation mycosis prevalent in tropical climate zones, considered an occupational disease that affects impoverished rural populations. This retrospective study described clinical aspects of CBM in a hyperendemic area in Brazil and constructed a worldwide haplotype network of Fonsecaea spp. strains. The variables were collected from medical records using a standard report form, reporting 191 patients with CBM from Maranhão, Brazil. The mean age was 56.1 years, 168 (88%) patients were male and predominantly farmers (85.8%). The mean time of evolution of the disease until diagnosis was 9.4 years. Lower limbs (81.2%) and upper limbs (14.2%) were the main sites affected. Most patients exhibited verrucous (55%) and infiltrative plaque (48.2%). Fonsecaea spp. were identified in 136 cases and a haplotype network constructed with ITS sequences of 185 global strains revealed a total of 59 haplotypes exhibiting high haplotypic and low nucleotide diversities. No correlation was observed between the different haplotypes of Fonsecaea species and dermatological patterns, severity of disease or geographic distribution inside Maranhão. Data from this area contributed to better understanding the epidemiology of CBM. For the first time, a robust haplotype network with Fonsecaea strains reveals an evolutionary history with a recent population expansion.
Collapse
Affiliation(s)
- Daniel Wagner C. L. Santos
- Special Mycology Laboratory—LEMI, Division of Infectious Diseases, Federal University of São Paulo, São Paulo, 04039-032 SP, Brazil; (D.W.C.L.S.); (A.L.C.)
- Division of Infectious Diseases, Federal University of São Paulo, São Paulo, 04024-002 SP, Brazil
| | - Vania Aparecida Vicente
- Microbiology, Parasitology and Pathology Post-Graduation Program, Department of Pathology, Federal University of Paraná, Curitiba, 81531-980 PR, Brazil; (V.A.V.); (V.A.W.); (G.S.d.H.); (R.R.G.); (F.d.Q.-T.)
- Bioprocess Engineering and Biotechnology Graduate Program, Federal University of Paraná, Curitiba, 81531-980 PR, Brazil
| | - Vinicius Almir Weiss
- Microbiology, Parasitology and Pathology Post-Graduation Program, Department of Pathology, Federal University of Paraná, Curitiba, 81531-980 PR, Brazil; (V.A.V.); (V.A.W.); (G.S.d.H.); (R.R.G.); (F.d.Q.-T.)
| | - G. Sybren de Hoog
- Microbiology, Parasitology and Pathology Post-Graduation Program, Department of Pathology, Federal University of Paraná, Curitiba, 81531-980 PR, Brazil; (V.A.V.); (V.A.W.); (G.S.d.H.); (R.R.G.); (F.d.Q.-T.)
- Center of Expertise in Mycology, Radboud University Medical Center/CWZ, 6525 GA Nijmegen, The Netherlands
| | - Renata R. Gomes
- Microbiology, Parasitology and Pathology Post-Graduation Program, Department of Pathology, Federal University of Paraná, Curitiba, 81531-980 PR, Brazil; (V.A.V.); (V.A.W.); (G.S.d.H.); (R.R.G.); (F.d.Q.-T.)
| | - Edith M. M. Batista
- Department of Medicine, Federal University of Maranhão, São Luís, 65080-040 MA, Brazil; (E.M.M.B.); (S.G.M.)
| | - Sirlei Garcia Marques
- Department of Medicine, Federal University of Maranhão, São Luís, 65080-040 MA, Brazil; (E.M.M.B.); (S.G.M.)
| | - Flávio de Queiroz-Telles
- Microbiology, Parasitology and Pathology Post-Graduation Program, Department of Pathology, Federal University of Paraná, Curitiba, 81531-980 PR, Brazil; (V.A.V.); (V.A.W.); (G.S.d.H.); (R.R.G.); (F.d.Q.-T.)
| | - Arnaldo Lopes Colombo
- Special Mycology Laboratory—LEMI, Division of Infectious Diseases, Federal University of São Paulo, São Paulo, 04039-032 SP, Brazil; (D.W.C.L.S.); (A.L.C.)
- Division of Infectious Diseases, Federal University of São Paulo, São Paulo, 04024-002 SP, Brazil
| | - Conceição de Maria Pedrozo e Silva de Azevedo
- Department of Medicine, Federal University of Maranhão, São Luís, 65080-040 MA, Brazil; (E.M.M.B.); (S.G.M.)
- Post-Graduation Program of Health Science, Federal University of Maranhão, São Luís, 65080-040 MA, Brazil
- Correspondence:
| |
Collapse
|
33
|
Unveiling the Hidden Diversity of Rock-Inhabiting Fungi: Chaetothyriales from China. J Fungi (Basel) 2020; 6:jof6040187. [PMID: 32987844 PMCID: PMC7711927 DOI: 10.3390/jof6040187] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2020] [Revised: 09/16/2020] [Accepted: 09/18/2020] [Indexed: 11/16/2022] Open
Abstract
Rock-inhabiting fungi (RIF) are nonlichenized fungi that naturally colonize rock surfaces and subsurfaces. The extremely slow growth rate and lack of distinguishing morphological characteristics of RIF resulted in a poor understanding on their biodiversity. In this study, we surveyed RIF colonizing historical stone monuments and natural rock formations from throughout China. Among over 1000 isolates, after preliminary delimitation using the internal transcribed spacer region (ITS) sequences, representative isolates belonging to Trichomeriaceae and Herpotrichiellaceae were selected for a combined analysis of ITS and the nuclear ribosomal large subunit (nucLSU) to determine the generic placements. Eight clades representing seven known genera and one new genus herein named as Anthracina were placed in Trichomeriaceae. While, for Herpotrichiellaceae, two clades corresponded to two genera: Cladophialophora and Exophiala. Fine-scale phylogenetic analyses using combined sequences of the partial actin gene (ACT), ITS, mitochondrial small subunit ribosomal DNA (mtSSU), nucLSU, the largest subunit of RNA polymerase II (RPB1), small subunit of nuclear ribosomal RNA gene (SSU), translation elongation factor (TEF), and β-tubulin gene (TUB) revealed that these strains represented 11 and 6 new species, respectively, in Trichomeriaceae and Herpotrichiellaceae. The 17 new species were described, illustrated for their morphologies and compared with similar taxa. Our study demonstrated that the diversity of RIF is surprisingly high and still poorly understood. In addition, a rapid strategy for classifying RIF was proposed to determine the generic and familial placements through preliminary ITS and nucLSU analyses, followed by combined analyses of five loci selected from ACT, ITS, mtSSU, nucLSU, RPB1, and/or the second subunit of RNA polymerase II gene (RPB2), SSU, TEF, and TUB regions to classify RIF to the species level.
Collapse
|
34
|
Environmental prospecting of black yeast-like agents of human disease using culture-independent methodology. Sci Rep 2020; 10:14229. [PMID: 32848176 PMCID: PMC7450056 DOI: 10.1038/s41598-020-70915-0] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2019] [Accepted: 07/22/2020] [Indexed: 11/16/2022] Open
Abstract
Melanized fungi and black yeasts in the family Herpotrichiellaceae (order Chaetothyriales) are important agents of human and animal infectious diseases such as chromoblastomycosis and phaeohyphomycosis. The oligotrophic nature of these fungi enables them to survive in adverse environments where common saprobes are absent. Due to their slow growth, they lose competition with common saprobes, and therefore isolation studies yielded low frequencies of clinically relevant species in environmental habitats from which humans are thought to be infected. This problem can be solved with metagenomic techniques which allow recognition of microorganisms independent from culture. The present study aimed to identify species of the family Herpotrichiellaceae that are known to occur in Brazil by the use of molecular markers to screen public environmental metagenomic datasets from Brazil available in the Sequence Read Archive (SRA). Species characterization was performed with the BLAST comparison of previously described barcodes and padlock probe sequences. A total of 18,329 sequences was collected comprising the genera Cladophialophora, Exophiala, Fonsecaea, Rhinocladiella and Veronaea, with a focus on species related to the chromoblastomycosis. The data obtained in this study demonstrated presence of these opportunists in the investigated datasets. The used techniques contribute to our understanding of environmental occurrence and epidemiology of black fungi.
Collapse
|
35
|
Abstract
AbstractChaetothyriales is an ascomycetous order within Eurotiomycetes. The order is particularly known through the black yeasts and filamentous relatives that cause opportunistic infections in humans. All species in the order are consistently melanized. Ecology and habitats of species are highly diverse, and often rather extreme in terms of exposition and toxicity. Families are defined on the basis of evolutionary history, which is reconstructed by time of divergence and concepts of comparative biology using stochastical character mapping and a multi-rate Brownian motion model to reconstruct ecological ancestral character states. Ancestry is hypothesized to be with a rock-inhabiting life style. Ecological disparity increased significantly in late Jurassic, probably due to expansion of cytochromes followed by colonization of vacant ecospaces. Dramatic diversification took place subsequently, but at a low level of innovation resulting in strong niche conservatism for extant taxa. Families are ecologically different in degrees of specialization. One of the clades has adapted ant domatia, which are rich in hydrocarbons. In derived families, similar processes have enabled survival in domesticated environments rich in creosote and toxic hydrocarbons, and this ability might also explain the pronounced infectious ability of vertebrate hosts observed in these families. Conventional systems of morphological classification poorly correspond with recent phylogenetic data. Species are hypothesized to have low competitive ability against neighboring microbes, which interferes with their laboratory isolation on routine media. The dataset is unbalanced in that a large part of the extant biodiversity has not been analyzed by molecular methods, novel taxonomic entities being introduced at a regular pace. Our study comprises all available species sequenced to date for LSU and ITS, and a nomenclatural overview is provided. A limited number of species could not be assigned to any extant family.
Collapse
|
36
|
Fungal Planet description sheets: 1042-1111. Persoonia - Molecular Phylogeny and Evolution of Fungi 2020; 44:301-459. [PMID: 33116344 PMCID: PMC7567971 DOI: 10.3767/persoonia.2020.44.11] [Citation(s) in RCA: 72] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/01/2020] [Accepted: 05/30/2020] [Indexed: 12/31/2022]
Abstract
Novel species of fungi described in this study include those from various countries as follows: Antarctica, Cladosporium arenosum from marine sediment sand. Argentina, Kosmimatamyces alatophylus (incl. Kosmimatamyces gen. nov.) from soil. Australia, Aspergillus banksianus, Aspergillus kumbius, Aspergillus luteorubrus, Aspergillus malvicolor and Aspergillus nanangensis from soil, Erysiphe medicaginis from leaves of Medicago polymorpha, Hymenotorrendiella communis on leaf litter of Eucalyptus bicostata, Lactifluus albopicri and Lactifluus austropiperatus on soil, Macalpinomyces collinsiae on Eriachne benthamii, Marasmius vagus on soil, Microdochium dawsoniorum from leaves of Sporobolus natalensis, Neopestalotiopsis nebuloides from leaves of Sporobolus elongatus, Pestalotiopsis etonensis from leaves of Sporobolus jacquemontii, Phytophthora personensis from soil associated with dying Grevillea mccutcheonii.Brazil, Aspergillus oxumiae from soil, Calvatia baixaverdensis on soil, Geastrum calycicoriaceum on leaf litter, Greeneria kielmeyerae on leaf spots of Kielmeyera coriacea. Chile, Phytophthora aysenensis on collar rot and stem of Aristotelia chilensis.Croatia, Mollisia gibbospora on fallen branch of Fagus sylvatica.Czech Republic, Neosetophoma hnaniceana from Buxus sempervirens.Ecuador, Exophiala frigidotolerans from soil. Estonia, Elaphomyces bucholtzii in soil. France, Venturia paralias from leaves of Euphorbia paralias.India, Cortinarius balteatoindicus and Cortinarius ulkhagarhiensis on leaf litter. Indonesia, Hymenotorrendiella indonesiana on Eucalyptus urophylla leaf litter. Italy, Penicillium taurinense from indoor chestnut mill. Malaysia, Hemileucoglossum kelabitense on soil, Satchmopsis pini on dead needles of Pinus tecunumanii.Poland, Lecanicillium praecognitum on insects’ frass. Portugal, Neodevriesia aestuarina from saline water. Republic of Korea, Gongronella namwonensis from freshwater. Russia, Candida pellucida from Exomias pellucidus, Heterocephalacria septentrionalis as endophyte from Cladonia rangiferina, Vishniacozyma phoenicis from dates fruit, Volvariella paludosa from swamp. Slovenia, Mallocybe crassivelata on soil. South Africa, Beltraniella podocarpi, Hamatocanthoscypha podocarpi, Coleophoma podocarpi and Nothoseiridium podocarpi (incl. Nothoseiridium gen. nov.) from leaves of Podocarpus latifolius, Gyrothrix encephalarti from leaves of Encephalartos sp., Paraphyton cutaneum from skin of human patient, Phacidiella alsophilae from leaves of Alsophila capensis, and Satchmopsis metrosideri on leaf litter of Metrosideros excelsa.Spain, Cladophialophora cabanerensis from soil, Cortinarius paezii on soil, Cylindrium magnoliae from leaves of Magnolia grandiflora, Trichophoma cylindrospora (incl. Trichophoma gen. nov.) from plant debris, Tuber alcaracense in calcareus soil, Tuber buendiae in calcareus soil. Thailand, Annulohypoxylon spougei on corticated wood, Poaceascoma filiforme from leaves of unknown Poaceae.UK, Dendrostoma luteum on branch lesions of Castanea sativa, Ypsilina buttingtonensis from heartwood of Quercus sp. Ukraine, Myrmecridium phragmiticola from leaves of Phragmites australis.USA, Absidia pararepens from air, Juncomyces californiensis (incl. Juncomyces gen. nov.) from leaves of Juncus effusus, Montagnula cylindrospora from a human skin sample, Muriphila oklahomaensis (incl. Muriphila gen. nov.) on outside wall of alcohol distillery, Neofabraea eucalyptorum from leaves of Eucalyptus macrandra, Diabolocovidia claustri (incl. Diabolocovidia gen. nov.) from leaves of Serenoa repens, Paecilomyces penicilliformis from air, Pseudopezicula betulae from leaves of leaf spots of Populus tremuloides. Vietnam, Diaporthe durionigena on branches of Durio zibethinus and Roridomyces pseudoirritans on rotten wood. Morphological and culture characteristics are supported by DNA barcodes.
Collapse
|
37
|
Chromoblastomycosis caused by Cladophialophora carrionii. Infection 2020; 49:567-568. [PMID: 32451738 DOI: 10.1007/s15010-020-01437-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2020] [Accepted: 05/01/2020] [Indexed: 10/24/2022]
|
38
|
Hernández-Restrepo M, Giraldo A, van Doorn R, Wingfield MJ, Groenewald JZ, Barreto RW, Colmán AA, Mansur PSC, Crous PW. The Genera of Fungi - G6: Arthrographis, Kramasamuha, Melnikomyces, Thysanorea, and Verruconis. Fungal Syst Evol 2020; 6:1-24. [PMID: 32904189 PMCID: PMC7451779 DOI: 10.3114/fuse.2020.06.01] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
Abstract
The Genera of Fungi series, of which this is the sixth contribution, links type species of fungal genera to their morphology and DNA sequence data. Five genera of microfungi are treated in this study, with new species introduced in Arthrographis, Melnikomyces, and Verruconis. The genus Thysanorea is emended and two new species and nine combinations are proposed. Kramasamuha sibika, the type species of the genus, is provided with DNA sequence data for first time and shown to be a member of Helminthosphaeriaceae (Sordariomycetes). Aureoconidiella is introduced as a new genus representing a new lineage in the Dothideomycetes.
Collapse
Affiliation(s)
- M Hernández-Restrepo
- Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands
| | - A Giraldo
- Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands.,Faculty of Natural and Agricultural Sciences, Department of Plant Sciences, University of the Free State, P.O. Box 339, Bloemfontein 9300, South Africa
| | - R van Doorn
- Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands
| | - M J Wingfield
- Department of Genetics, Biochemistry and Microbiology, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, 0002, South Africa
| | - J Z Groenewald
- Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands
| | - R W Barreto
- Departamento de Fitopatologia, Universidade Federal de Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil
| | - A A Colmán
- Departamento de Fitopatologia, Universidade Federal de Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil
| | - P S C Mansur
- Departamento de Fitopatologia, Universidade Federal de Viçosa, 36570-900, Viçosa, Minas Gerais, Brazil
| | - P W Crous
- Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands.,Faculty of Natural and Agricultural Sciences, Department of Plant Sciences, University of the Free State, P.O. Box 339, Bloemfontein 9300, South Africa.,Department of Genetics, Biochemistry and Microbiology, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, 0002, South Africa
| |
Collapse
|
39
|
Fungal Diversity of Deteriorated Sparkling Wine and Cork Stoppers in Catalonia, Spain. Microorganisms 2019; 8:microorganisms8010012. [PMID: 31861653 PMCID: PMC7023407 DOI: 10.3390/microorganisms8010012] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2019] [Revised: 12/17/2019] [Accepted: 12/17/2019] [Indexed: 01/28/2023] Open
Abstract
Filamentous fungi are rarely reported as responsible for spoiling wine. Cork taint was detected in sparkling wine; therefore, we investigated fungal contamination as a possible cause of organoleptic alteration. Spoiled wine was filtered and membranes were plated onto potato dextrose agar (PDA). The cork stoppers used for sealing bottles were cut and also plated onto PDA. Fungal strains were phenotypically characterized and molecularly identified by sequencing of a fragment of the 28S nrRNA gene (LSU) and (occasionally) by other additional molecular markers. Twenty-seven strains were isolated and sixteen species were identified, all of them belonging to the phylum Ascomycota. The fungi isolated from wine were three species of Aspergillus section Nidulantes, a species of Penicillium section Exicaulis and Beauveria bassiana. Candida patagonica was isolated from both sort of samples, and the fungi isolated from cork stoppers were Altenaria alternata and Cladosporium cladosporioides. Surprisingly, most of the taxa recovered from the cork stoppers and/or wine were new to the science: a new genus (Dactylodendron) and seven new species belonging to the genera Cladophialophora, Dactylodendron, Kirschsteiniothelia, Rasamsonia, and Talaromyces. Future studies could let us know if these fungi would be able to produce compounds responsible for cork taint.
Collapse
|
40
|
Bergsveinson J, Perry BJ, Simpson GL, Yost CK, Schutzman RJ, Hall BD, Cameron ADS. Spatial analysis of a hydrocarbon waste-remediating landfarm demonstrates influence of management practices on bacterial and fungal community structure. Microb Biotechnol 2019; 12:1199-1209. [PMID: 30927344 PMCID: PMC6801160 DOI: 10.1111/1751-7915.13397] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2018] [Revised: 02/15/2019] [Accepted: 02/21/2019] [Indexed: 11/27/2022] Open
Abstract
Cultivation of dedicated soil plots called 'landfarms' is an effective technology for bioremediation of hydrocarbon waste generated by various industrial practices. To understand the influence of soil conditions on landfarm microbial communities, analysis of bacterial and fungal community structure using next-generation sequencing at different sections and depths was performed across a hydrocarbon-waste landfarm in Regina, Saskatchewan, Canada. While a core set of hydrocarbon-associated bacterial and fungal taxa are present throughout the landfarm, unique bacterial and fungal operational taxonomic units are differentially abundant at sections within the landfarm, which correlate with differences in soil physiochemical properties and management practices. Increased frequency of waste application resulted in strong positive correlations between bacterial community assemblages and elevated amounts of oil, grease and F3 - F4 hydrocarbon fractions. In areas of standing water and lower application of hydrocarbon, microbial community structure correlated with soil pH, trace nutrients and metals. Overall, diversity and structure of bacterial communities remain relatively stable across the landfarm, while in contrast, fungal community structure appears more responsive to soil oxygen conditions. Results are consistent with the hypothesis that years of bioremediation activity have shaped microbial communities; however, several management practices can be undertaken to increase efficiency of remediation, including the removal of standing water and soil tilling across the landfarm.
Collapse
Affiliation(s)
- Jordyn Bergsveinson
- Department of BiologyUniversity of ReginaReginaSKCanada
- Institute for Microbial Systems and SocietyUniversity of ReginaReginaSKCanada
| | - Benjamin J. Perry
- Department of BiologyUniversity of ReginaReginaSKCanada
- Present address:
Department of Microbiology and ImmunologyUniversity of OtagoDunedinNew Zealand
| | - Gavin L. Simpson
- Department of BiologyUniversity of ReginaReginaSKCanada
- Institute of Environmental Change and SocietyUniversity of ReginaReginaSKCanada
| | - Christopher K. Yost
- Department of BiologyUniversity of ReginaReginaSKCanada
- Institute for Microbial Systems and SocietyUniversity of ReginaReginaSKCanada
| | | | - Britt D. Hall
- Department of BiologyUniversity of ReginaReginaSKCanada
| | - Andrew D. S. Cameron
- Department of BiologyUniversity of ReginaReginaSKCanada
- Institute for Microbial Systems and SocietyUniversity of ReginaReginaSKCanada
| |
Collapse
|
41
|
Tischer M, Gorczak M, Bojarski B, Pawłowska J, Hoffeins C, Hoffeins HW, Wrzosek M. New fossils of ascomycetous anamorphic fungi from Baltic amber. Fungal Biol 2019; 123:804-810. [PMID: 31627856 DOI: 10.1016/j.funbio.2019.08.003] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2019] [Revised: 08/07/2019] [Accepted: 08/08/2019] [Indexed: 11/18/2022]
Abstract
Three new fossils of saprotrophic fungi are presented and described from Baltic amber, dated to Eocene epoch (Paleogene, upper to mid-Eocene). All belong to Ascomycota and are represented by hyphae as well as asexual reproduction structures allowing to assign them to present genera, respectively Periconia, Penicillium and Scopulariopsis. These material provide both the first and the oldest known fossil record of the mentioned taxa, making these data valuable for the knowledge about the evolutionary history of the Ascomycota.
Collapse
Affiliation(s)
- Marta Tischer
- Department of Molecular Phylogenetics and Evolution, Faculty of Biology, Biological and Chemical Research Center, University of Warsaw, ul. Żwirki i Wigury 101, 02-089 Warsaw, Poland; Department for Animal Evolution and Biodiversity, Georg-August-Universität Göttingen, Untere Karspüle 2, 37073 Göttingen, Germany.
| | - Michał Gorczak
- Department of Molecular Phylogenetics and Evolution, Faculty of Biology, Biological and Chemical Research Center, University of Warsaw, ul. Żwirki i Wigury 101, 02-089 Warsaw, Poland
| | - Błażej Bojarski
- Laboratory of Evolutionary Entomology and Museum of Inclusions in Amber, University of Gdańsk, ul. Wita Stwosza 59, 80-308 Gdańsk, Poland
| | - Julia Pawłowska
- Department of Molecular Phylogenetics and Evolution, Faculty of Biology, Biological and Chemical Research Center, University of Warsaw, ul. Żwirki i Wigury 101, 02-089 Warsaw, Poland
| | | | | | - Marta Wrzosek
- Department of Molecular Phylogenetics and Evolution, Faculty of Biology, Biological and Chemical Research Center, University of Warsaw, ul. Żwirki i Wigury 101, 02-089 Warsaw, Poland
| |
Collapse
|
42
|
|
43
|
Das K, Lee SY, Jung HY. Cladophialophora lanosa sp. nov., a New Species Isolated from Soil. MYCOBIOLOGY 2019; 47:173-179. [PMID: 31448137 PMCID: PMC6691926 DOI: 10.1080/12298093.2019.1611242] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/22/2018] [Revised: 02/18/2019] [Accepted: 04/08/2019] [Indexed: 06/10/2023]
Abstract
Cladophialophora is characterized by simple hyphomycetes with brown hyphae that give rise to branched chains of pale brown conidia and shows affinities with the Herpotrichiellaceae. A fungal strain belonging to the genus Cladophialophora was isolated from soil in Daegu, Korea. This strain produces numerous greenish to dark black lanose aerial mycelia with hair like structures. It is morphological similar to C. chaetospira, C. inabaensis, and C. multiseptata; however, the conidiophores and conidia sizes of the newly isolated strain (KNU16-032) are clearly different from them. The novelty of the strain was also confirmed based on phylogenetic analysis using the data sets of the internal transcribed spacer region of and the partial sequence of 28S ribosomal DNA region along with the cultural characteristics. Because morphological observations and phylogenetic analysis indicated that the strain is distinct from previously known Cladophialophora species, we propose this species as a new species Cladophialophora lanosa sp. nov., and provide the detailed descriptions in this study.
Collapse
Affiliation(s)
- Kallol Das
- School of Applied Biosciences, College of Agriculture and Life Sciences, Kyungpook National University, Daegu 41566, Korea
| | - Seung-Yeol Lee
- School of Applied Biosciences, College of Agriculture and Life Sciences, Kyungpook National University, Daegu 41566, Korea
| | - Hee-Young Jung
- School of Applied Biosciences, College of Agriculture and Life Sciences, Kyungpook National University, Daegu 41566, Korea
| |
Collapse
|
44
|
Alves IMS, Gonçalves VN, Oliveira FS, Schaefer CEGR, Rosa CA, Rosa LH. The diversity, distribution, and pathogenic potential of cultivable fungi present in rocks from the South Shetlands archipelago, Maritime Antarctica. Extremophiles 2019; 23:327-336. [PMID: 30852677 DOI: 10.1007/s00792-019-01086-8] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2018] [Accepted: 03/04/2019] [Indexed: 11/24/2022]
Abstract
We studied the molecular taxonomy and diversity of cultivable rock fungi from Antarctic islands. From 50 rock samples, 386 fungal isolates were obtained and identified as 33 taxa of 20 genera. The genera Cladophialophora, Cladosporium, Cyphellophora, Eichleriella, Paracladophialophora, and Penicillium displayed the highest densities. Ecological diversity indices showed that the fungal assemblages are diverse and rich with low dominance. The genera Cladophialophora, Cladosporium, and Penicillium showed a broad distribution from rocks of the various islands. One hundred and fifty-nine fungi, grown at 37 °C, were identified as Penicillium chrysogenum, Fusarium sp., and Rhodotorula mucilaginosa. One hundred and three fungi displayed haemolytic activity, 81 produced proteinase, 9 produced phospholipase, and 25 presented dimorphism and a spore diameter ≤ 4 µm. The Antarctic Peninsula region appears to be under the effects of global climate changes, which may expose and accelerate the rock's weathering processes, and expose and release cryptic fungi and other microbes, especially those with innate pathogenic potential, previously arrested in rocks. Consequently, these rocks and their particles may represent a vehicle for the dispersal of microbial propagules, including those able to spread pathogens, along, across, and out of Antarctica.
Collapse
Affiliation(s)
- Isabel M S Alves
- Departmento de Microbiologia, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brasil
| | - Vívian N Gonçalves
- Departmento de Microbiologia, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brasil
| | - Fabio S Oliveira
- Departmento de Geofrafia, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brasil
| | | | - Carlos A Rosa
- Departmento de Microbiologia, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brasil
| | - Luiz H Rosa
- Departmento de Microbiologia, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brasil.
| |
Collapse
|
45
|
Moreno LF, Vicente VA, de Hoog S. Black yeasts in the omics era: Achievements and challenges. Med Mycol 2018. [PMID: 29538737 DOI: 10.1093/mmy/myx129] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022] Open
Abstract
Black yeasts (BY) comprise a group of polyextremotolerant fungi, mainly belonging to the order Chaetothyriales, which are capable of colonizing a wide range of extreme environments. The tolerance to hostile habitats can be explained by their intrinsic ability to survive under acidic, alkaline, and toxic conditions, high temperature, low nutrient availability, and osmotic and mechanical stress. Occasionally, some species can cause human chromoblastomycosis, a chronic subcutaneous infection, as well as disseminated or cerebral phaeohyphomycosis. Three years after the release of the first black yeast genome, the number of projects for sequencing these organisms has significantly increased. Over 37 genomes of important opportunistic and saprobic black yeasts and relatives are now available in different databases. The whole-genome sequencing, as well as the analysis of differentially expressed mRNAs and the determination of protein expression profiles generated an unprecedented amount of data, requiring the development of a curated repository to provide easy accesses to this information. In the present article, we review various aspects of the impact of genomics, transcriptomics, and proteomics on black yeast studies. We discuss recent key findings achieved by the use of these technologies and further directions for medical mycology in this area. An important vehicle is the Working Groups on Black Yeasts and Chromoblastomycosis, under the umbrella of ISHAM, which unite the clinicians and a highly diverse population of fundamental scientists to exchange data for joint publications.
Collapse
Affiliation(s)
- Leandro Ferreira Moreno
- Westerdijk Fungal Biodiversity Institute, Utrecht, The Netherlands.,Institute of Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, Netherlands.,Department of Basic Pathology, Federal University of Paraná State, Curitiba, PR, Brazil
| | | | - Sybren de Hoog
- Westerdijk Fungal Biodiversity Institute, Utrecht, The Netherlands.,Institute of Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, Netherlands.,Department of Basic Pathology, Federal University of Paraná State, Curitiba, PR, Brazil.,Center of Expertise in Mycology of Radboudumc / CWZ, Nijmegen, The Netherlands
| |
Collapse
|
46
|
Fornari G, Gomes RR, Degenhardt-Goldbach J, Dos Santos SS, de Almeida SR, Dos Santos GD, Muro MD, Bona C, Scola RH, Trindade ES, Bini IH, Ferreira-Maba LS, Kestring DR, do Nascimento MMF, Lima BJFDS, Voidaleski MF, Steinmacher DA, Soley BDS, Deng S, Bocca AL, da Silva MB, Salgado CG, de Azevedo CMPES, Vicente VA, de Hoog S. A Model for Trans-Kingdom Pathogenicity in Fonsecaea Agents of Human Chromoblastomycosis. Front Microbiol 2018; 9:2211. [PMID: 30356683 PMCID: PMC6189323 DOI: 10.3389/fmicb.2018.02211] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2018] [Accepted: 08/29/2018] [Indexed: 12/17/2022] Open
Abstract
The fungal genus Fonsecaea comprises etiological agents of human chromoblastomycosis, a chronic implantation skin disease. The current hypothesis is that patients acquire the infection through an injury from plant material. The present study aimed to evaluate a model of infection in plant and animal hosts to understand the parameters of trans-kingdom pathogenicity. Clinical strains of causative agents of chromoblastomycosis (Fonsecaea pedrosoi and Fonsecaea monophora) were compared with a strain of Fonsecaea erecta isolated from a living plant. The clinical strains of F. monophora and F. pedrosoi remained concentrated near the epidermis, whereas F. erecta colonized deeper plant tissues, resembling an endophytic behavior. In an invertebrate infection model with larvae of a beetle, Tenebrio molitor, F. erecta exhibited the lowest survival rates. However, F. pedrosoi produced dark, spherical to ovoidal cells that resembled muriform cells, the invasive form of human chromoblastomycosis confirming the role of muriform cells as a pathogenic adaptation in animal tissues. An immunologic assay in BALB/c mice demonstrated the high virulence of saprobic species in animal models was subsequently controlled via host higher immune response.
Collapse
Affiliation(s)
- Gheniffer Fornari
- Microbiology, Parasitology and Pathology Post-graduation Program, Department of Basic Pathology, Federal University of Paraná, Curitiba, Brazil
| | - Renata Rodrigues Gomes
- Microbiology, Parasitology and Pathology Post-graduation Program, Department of Basic Pathology, Federal University of Paraná, Curitiba, Brazil
| | | | - Suelen Silvana Dos Santos
- Department of Clinical and Pharmacological Analysis, College of Pharmaceutical Sciences, University of São Paulo, São Paulo, Brazil
| | - Sandro Rogério de Almeida
- Department of Clinical and Pharmacological Analysis, College of Pharmaceutical Sciences, University of São Paulo, São Paulo, Brazil
| | - Germana Davila Dos Santos
- Microbiology, Parasitology and Pathology Post-graduation Program, Department of Basic Pathology, Federal University of Paraná, Curitiba, Brazil
| | - Marisol Dominguez Muro
- Support and Diagnosis Unit, Mycology Laboratory, Hospital of Clinics, Federal University of Paraná, Curitiba, Brazil
| | - Cleusa Bona
- Department of Botany, Federal University of Paraná, Curitiba, Brazil
| | | | - Edvaldo S Trindade
- Department of Cell Biology, Federal University of Paraná, Curitiba, Brazil
| | | | | | - Daiane Rigoni Kestring
- Embrapa Forestry, Brazilian Agricultural Research Corporation (EMBRAPA), Colombo, Brazil
| | | | | | - Morgana F Voidaleski
- Microbiology, Parasitology and Pathology Post-graduation Program, Department of Basic Pathology, Federal University of Paraná, Curitiba, Brazil
| | | | | | - Shuwen Deng
- Department of Medical Microbiology, People's Hospital of Suzhou National New & Hi-Tech Industrial Development Zone, Jiangsu, China
| | - Anamelia Lorenzetti Bocca
- Dermato-Immunology Laboratory, Institute of Biological Sciences, Federal University of Para, Marituba, Brazil
| | - Moises B da Silva
- Department of Cell Biology, University of Brasília (UnB), Brasília, Brazil, 13 Department of Medicine, Federal University of Maranhão, São Luís, Brazil
| | - Claudio G Salgado
- Dermato-Immunology Laboratory, Institute of Biological Sciences, Federal University of Para, Marituba, Brazil
| | | | - Vania Aparecida Vicente
- Microbiology, Parasitology and Pathology Post-graduation Program, Department of Basic Pathology, Federal University of Paraná, Curitiba, Brazil
| | - Sybren de Hoog
- Microbiology, Parasitology and Pathology Post-graduation Program, Department of Basic Pathology, Federal University of Paraná, Curitiba, Brazil.,Department of Medical Microbiology, People's Hospital of Suzhou National New & Hi-Tech Industrial Development Zone, Jiangsu, China.,Westerdijk Fungal Biodiversity Institute, Utrecht, Netherlands.,Center of Expertise in Mycology Radboudumc/CWZ, Nijmegen, Netherlands
| |
Collapse
|
47
|
Najafzadeh MJ, Gerrits van den Ende AHG, Vicente VA, Dolatabadi S, Sun J, de Hoog GS. Identification of chromoblastomycosis agents by PCR based reverse line blot (PCR-RLB) hybridization assay. Microb Pathog 2018; 125:43-47. [PMID: 30194974 DOI: 10.1016/j.micpath.2018.09.002] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2018] [Revised: 08/27/2018] [Accepted: 09/01/2018] [Indexed: 11/16/2022]
Abstract
Chromoblastomycosis is one of the most prevalent implantation fungal infections caused by melanized fungi, affecting individuals with certain risk factors with high morbidity due to its recalcitrant nature. It is difficult to identify the etiological agents and thus a suitable reproductive molecular identification method applicable in developing countries has been investigated. We report the identification of four different fungal causative agents of chromoblastomycosis by reverse line blotting hybridization (RLB) based on biotin-labeled PCR products and amine labeled probes to hybridize. Sixty five reference strains, including type strains, i.e. Fonsecaea pedrosoi, F. monophora, F. nubica, and Phialophora verrucosa, obtained from the CBS-KNAW were included in this study. Internal transcribed spacer 1 (ITS1) regions of relevant species were aligned and adjusted using BIONUMERICS v. 4.61 in order to design four specific probes to identify informative nucleotide polymorphisms. The final identification of these species by RLB assay was concordant with ITS sequencing and showed 100% specificity with no cross hybridization, able to identify all tested strains. The time and cost were less compare to other routine identification methods such as sequencing. This assay allows sensitive and specific simultaneous detection and identification of a different fungal species.
Collapse
Affiliation(s)
- M J Najafzadeh
- Department of Parasitology and Mycology, Faculty of Medicine, Mashhad University of Medical Sciences, Mashhad, Iran; Cancer Molecular Pathology Research Center, Mashhad University of Medical Sciences, Mashhad, Iran
| | | | - V A Vicente
- Microbiology, Parasitology and Pathology Post-Graduation Program, Department of Basic Pathology, Federal University of Paraná, Brazil
| | - S Dolatabadi
- Westerdijk Fungal Biodiversity Institute, Utrecht, the Netherlands; Faculty of Engineering, Sabzevar University of New Technology, Sabzevar, Iran.
| | - J Sun
- Guangdong Provincial Institute of Public Health, Guangdong Provincial Center for Disease Control and Prevention, Guangzhou, China
| | - G S de Hoog
- Westerdijk Fungal Biodiversity Institute, Utrecht, the Netherlands; Center of Expertise in Mycology Radboudumc / CWZ, Nijmegen, the Netherlands.
| |
Collapse
|
48
|
Detection of a root-associated group of Hyaloscyphaceae (Helotiales) species that commonly colonizes Fagaceae roots and description of three new species in genus Glutinomyces. MYCOSCIENCE 2018. [DOI: 10.1016/j.myc.2018.02.010] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
|
49
|
Heuchert B, Braun U, Diederich P, Ertz D. Taxonomic monograph of the genus Taeniolella s. lat. ( Ascomycota). Fungal Syst Evol 2018; 2:69-261. [PMID: 32467889 PMCID: PMC7225685 DOI: 10.3114/fuse.2018.02.06] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
Abstract
A taxonomic monograph of the ascomycete genus Taeniolella (asexual dematiaceous hyphomycetes, sexual morphs unknown) is provided. Recent phylogenetic analyses demonstrated the polyphyly of this genus. The type species of Taeniolella pertains to the Kirschsteiniotheliaceae within Dothideomycetes, while other saprobic species clustered far away within Sordariomycetes, Savoryellaceae s. lat., and Lindgomycetaceae, whereas lichenicolous species belong to a monophyletic clade that represents the order Asterotexiales, but for most species assigned to Taeniolella sequence data and phylogenetic analyses are not yet available. The main focus of the present taxonomic study was on a revision of the lichenicolous Taeniolella species. Since the currently available phylogenetic analyses do not allow final taxonomic conclusions at generic rank, the exclusion of lichenicolous species from Taeniolella s. lat. has been postponed pending a broader sampling and more phylogenetic data of allied ascomycete genera within the order Asterotexiales. For the interim, Taeniolella s. lat., including lichenicolous and saprobic species, is maintained. The taxonomic background, history, generic description and discrimination from morphologically confusable genera, phylogeny, biology, host range and distribution, and species concept of Taeniolella species are briefly outlined and discussed. Keys to the species of Taeniolella divided by ecological groups (lichenicolous taxa, saprobic taxa) are provided, supplemented by a tabular key to lichenicolous species based on host (lichen) families and genera. Twenty-nine lichenicolous species and a Taeniolella sp. (putative asexual morph of Sphaerellothecium thamnoliae) as well as 16 saprobic species are described in detail and illustrated by drawings, macroscopic photographs, light microscopic and SEM micrographs, including six new lichenicolous species (T. arctoparmeliae on Arctoparmelia separata, T. lecanoricola on Lecanora rupicola, T. thelotrematis on Thelotrema, T. umbilicariae and T. umbilicariicola on Umbilicaria, T. weberi on Thelotrema weberi), three new saprobic species (T. filamentosa on Salix, T. ravenelii on Quercus, T. stilbosporoides on Salix caprea), and one new combination, T. arthoniae. Most saprobic Taeniolella species are wood-inhabiting (on bark, decorticated trunks and twigs, rotten wood), whereas lichenicolous species grow on thalli and fruiting bodies (mostly apothecia) of lichens, mostly without causing any evident damage, but they are nevertheless confined to their host lichens, or they are obviously pathogenic and cause either disease of the thalli (e.g., Taeniolella chrysothricis and T. delicata) or at least thallus discolorations or necroses (e.g., T. christiansenii, T. chrysothricis, T. cladinicola, T. pseudocyphellariae, and T. strictae). Taeniolella atricerebrina and T. rolfii induce the formation of distinct galls. The range of micro-morphological traits for taxonomic purposes is limited in Taeniolella species, but size, shape and septation of conidiophores and conidia, including surface ornamentation, provided basic characters. Mycelium, stromata and arrangement of conidiophores are less important for the differentiation of species. Lichenicolous species are widespread on a wide range of lichens, with a focus in the northern hemisphere, mainly in northern temperate regions, including arctic-subartic habitats (18 species, i.e., 62 % of the lichenicolous species). Eleven lichenicolous species, e.g., T. pseudocyphellariae, T. santessonii, T. thelotrematis, T. umbilicariae, are also known from collections in non-temperate Asia, Australia and South America (38 % of the species). Most collections deposited in herbaria are from northern temperate to arctic-subarctic regions, which may reflect activities of lichenologists and mycologist dealing with lichenicolous fungi in general and Taeniolella in particular. Most lichenicolous Taeniolella species are confined to hosts of a single lichen genus or few closely allied genera (26 species, i.e., 97 % of the lichenicolous species), but only three species, T. delicata, T. punctata, and T. verrucosa, have wider hosts ranges. Excluded, doubtful and insufficiently known species assigned to Taeniolella are listed at the end, discussed, described and in some cases illustrated, including Talpapellis beschiana comb. nov. (≡ Taeniolella beschiana), Corynespora laevistipitata (≡ Taeniolella laevistipitata), Stanjehughesia lignicola comb. nov. (≡ Taeniolella lignicola), Sterigmatobotrys rudis (≡ Taeniolella rudis), and Taeniolina scripta (≡ Taeniolella scripta).
Collapse
Affiliation(s)
- B Heuchert
- Martin-Luther-Universität, Institut für Biologie, Bereich Geobotanik und Botanischer Garten, Herbarium, Neuwerk 21, 06099 Halle (Saale), Germany
| | - U Braun
- Martin-Luther-Universität, Institut für Biologie, Bereich Geobotanik und Botanischer Garten, Herbarium, Neuwerk 21, 06099 Halle (Saale), Germany
| | - P Diederich
- Musée national d'histoire naturelle, 25 rue Munster, L-2160 Luxembourg
| | - D Ertz
- Botanic Garden Meise, Department of Research, Nieuwelaan 38, B-1860 Meise, Belgium.,Fédération Wallonie-Bruxelles, Direction Générale de l'Enseignement non obligatoire et de la Recherche scientifique, rue A. Lavallée 1, B-1080 Bruxelles, Belgium
| |
Collapse
|
50
|
Kantarcioglu AS, Guarro J, De Hoog S, Apaydin H, Kiraz N. An updated comprehensive systematic review of Cladophialophora bantiana and analysis of epidemiology, clinical characteristics, and outcome of cerebral cases. Med Mycol 2018; 55:579-604. [PMID: 28007938 DOI: 10.1093/mmy/myw124] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2015] [Accepted: 11/01/2016] [Indexed: 12/28/2022] Open
Abstract
Cladophialophora bantiana is a phaeoid fungus that only rarely has been isolated from sources other than the human brain. It has a particular tropism for the central nervous system (CNS). We have integrated and updated large-scale data related to several aspects of C. Bantiana and reviewed all the available reports on its cerebral infections, focusing on their geographical distribution, infection routes, immune status of infected individuals, type and location of infections, clinical manifestations and treatment and outcome, briefly looking over the spectrum of other disease entities associated with C. bantiana, that is, extra-cerebral and animal infections and on the environmental sources of this fungus. Among the agents of phaeohyphomycosis, a term used to describe an infection caused by a dark pigmented fungus, C. bantiana has some significant specific features. A total of 120 case reports were identified with a significantly higher percentage of healthy subjects than immune-debilitated patients (58.3% vs. 41.7%). Infections due to C. bantiana occur worldwide. The main clinical manifestations are brain abscess (97.5%), coinfection of brain tissue and meninges (14.2%) and meningitis alone (2.5%). Among immunocompetent patients, cerebral infection occurred in the absence of pulmonary lesions. The mortality rate is 65.0% regardless of the patient's immune status. The therapeutic options used include surgery or antifungals alone, and the combination of both, in most cases the fatal outcome being rapid after admission. Since the fungus is a true pathogen, laboratory workers should be made aware that BioSafety Level-3 precautions might be necessary.
Collapse
Affiliation(s)
- A Serda Kantarcioglu
- Mycology Unit, Department of Medical Microbiology, Cerrahpasa Medical Faculty, 343098 Cerrahpasa, Istanbul, Turkey
| | - Josep Guarro
- Unitat de Microbiologia, Facultat de Medicina i Ciencies de la Salut, IISPV, Universitat Rovira i Virgili, E-43201 Reus, Spain
| | - Sybren De Hoog
- Centraalbureau voor Schimmelcultures, Utrecht, and Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, The Netherlands
| | - Hulya Apaydin
- Department of Neurology, Cerrahpasa Medical Faculty, 34098 Cerrahpasa, Istanbul, Turkey
| | - Nuri Kiraz
- Mycology Unit, Department of Medical Microbiology, Cerrahpasa Medical Faculty, 343098 Cerrahpasa, Istanbul, Turkey
| |
Collapse
|