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Tremble K, Henkel T, Bradshaw A, Domnauer C, Brown LM, Thám LX, Furci G, Aime MC, Moncalvo JM, Dentinger B. A revised phylogeny of Boletaceae using whole genome sequences. Mycologia 2024; 116:392-408. [PMID: 38551379 DOI: 10.1080/00275514.2024.2314963] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2023] [Accepted: 01/30/2024] [Indexed: 05/01/2024]
Abstract
The porcini mushroom family Boletaceae is a diverse, widespread group of ectomycorrhizal (ECM) mushroom-forming fungi that so far has eluded intrafamilial phylogenetic resolution based on morphology and multilocus data sets. In this study, we present a genome-wide molecular data set of 1764 single-copy gene families from a global sampling of 418 Boletaceae specimens. The resulting phylogenetic analysis has strong statistical support for most branches of the tree, including the first statistically robust backbone. The enigmatic Phylloboletellus chloephorus from non-ECM Argentinian subtropical forests was recovered as a new subfamily sister to the core Boletaceae. Time-calibrated branch lengths estimate that the family first arose in the early to mid-Cretaceous and underwent a rapid radiation in the Eocene, possibly when the ECM nutritional mode arose with the emergence and diversification of ECM angiosperms. Biogeographic reconstructions reveal a complex history of vicariance and episodic long-distance dispersal correlated with historical geologic events, including Gondwanan origins and inferred vicariance associated with its disarticulation. Together, this study represents the most comprehensively sampled, data-rich molecular phylogeny of the Boletaceae to date, establishing a foundation for future robust inferences of biogeography in the group.
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Affiliation(s)
- Keaton Tremble
- Natural History Museum of Utah and School of Biological Sciences, University of Utah, Salt Lake City, Utah 84108, USA
| | - Terry Henkel
- Department of Biological Sciences, California State Polytechnic University, Humboldt, Arcata 95521, California
| | - Alexander Bradshaw
- Natural History Museum of Utah and School of Biological Sciences, University of Utah, Salt Lake City, Utah 84108, USA
| | - Colin Domnauer
- Natural History Museum of Utah and School of Biological Sciences, University of Utah, Salt Lake City, Utah 84108, USA
| | - Lyda M Brown
- Natural History Museum of Utah and School of Biological Sciences, University of Utah, Salt Lake City, Utah 84108, USA
| | - Lê Xuân Thám
- Laboratory for Computation and Applications in Life Sciences, Institute for Computation Science and Artificial Intelligence, Van Lang University, Ho Chi Minh City 700000, Viet Nam
- Faculty of Applied Technology, School of Technology, Van Lang University, Ho Chi Minh City 700000, Viet Nam
| | | | - M Catherine Aime
- Department of Botany and Plant Pathology, Purdue University, West Lafayette, Indiana 47906, USA
| | - Jean-Marc Moncalvo
- Department of Natural History, Royal Ontario Museum and Department of Ecology and Evolutionary Biology, University of Toronto, Toronto, Ontario M5S 2C6, Canada
| | - Bryn Dentinger
- Natural History Museum of Utah and School of Biological Sciences, University of Utah, Salt Lake City, Utah 84108, USA
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Avram I, Pelinescu D, Gatea F, Ionescu R, Barcan A, Rosca R, Zanfirescu A, Vamanu E. Boletus edulis Extract-A New Modulator of Dysbiotic Microbiota. Life (Basel) 2023; 13:1481. [PMID: 37511858 PMCID: PMC10381576 DOI: 10.3390/life13071481] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2023] [Revised: 06/20/2023] [Accepted: 06/27/2023] [Indexed: 07/30/2023] Open
Abstract
The regular administration of antibiotics is a public concern due to the prejudices of large population groups and the high frequency with which antimicrobial products are prescribed. The current study aimed to evaluate the in vitro effect of a new extract from Boletus edulis (BEE) on the human microbiota. One of the disadvantages of this extensive use is the disruption of the human microbiota, leading to potential negative health consequences. The in vitro evaluation of BEE consisted in determining its cytotoxicity, influence on the concentration of four types of cytokines (IL-6, IL-10, IL-1β, TNFα), and capacity to modulate the human microbiota after administering antibiotics. The latter was assessed by microbiome analysis and the evaluation of short-chain fatty acid synthesis (SCFAs). Simultaneously, the content of total polyphenols, the antioxidant capacity, and the compositional analysis of the extract (individual polyphenols composition) were determined. The results showed that BEE modulates the microbial pattern and reduces inflammatory progression. The data demonstrated antioxidant properties correlated with the increase in synthesizing some biomarkers, such as SCFAs, which mitigated antibiotic-induced dysbiosis without using probiotic products.
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Affiliation(s)
- Ionela Avram
- Department of Genetics, University of Bucharest, 36-46 Bd. M. Kogalniceanu, 5th District, 050107 Bucharest, Romania
| | - Diana Pelinescu
- Department of Genetics, University of Bucharest, 36-46 Bd. M. Kogalniceanu, 5th District, 050107 Bucharest, Romania
| | - Florentina Gatea
- Centre of Bioanalysis, National Institute for Biological Sciences, 296 Spl. Independentei, 060031 Bucharest, Romania
| | - Robertina Ionescu
- Department of Genetics, University of Bucharest, 36-46 Bd. M. Kogalniceanu, 5th District, 050107 Bucharest, Romania
| | - Alexandru Barcan
- Faculty of Biotechnology, University of Agricultural Sciences and Veterinary Medicine, 011464 Bucharest, Romania
| | - Razvan Rosca
- Anoom Laboratories SRL, București, 28 Vintila Mihaileanu Sector 1, 024023 Bucharest, Romania
| | - Anca Zanfirescu
- Faculty of Pharmacy, "Carol Davila" University of Medicine and Pharmacy, Traian Vuia 6, 020956 Bucharest, Romania
| | - Emanuel Vamanu
- Faculty of Biotechnology, University of Agricultural Sciences and Veterinary Medicine, 011464 Bucharest, Romania
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Wang L, Liu H, Li T, Li J, Wang Y. Verified the rapid evaluation of the edible safety of wild porcini mushrooms, using deep learning and PLS-DA. J Sci Food Agric 2022; 102:1531-1539. [PMID: 34402067 DOI: 10.1002/jsfa.11488] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/17/2021] [Revised: 07/30/2021] [Accepted: 08/16/2021] [Indexed: 06/13/2023]
Abstract
BACKGROUND How to quickly identify poisonous mushrooms is a worldwide problem, because poisonous mushrooms and edible mushrooms have very similar appearances. Even some edible mushrooms must be processed further before they can be eaten. In addition, mushrooms from different geographical origins contain different levels of heavy metals. Eating frequent mushrooms with excessive heavy metal content can also cause food poisoning. This information is very important and needs to be informed to consumers in advance. Through the demand for the safety of porcini mushrooms in the Yunnan area we propose a hierarchical identification system based on Fourier-transform near-infrared (FT-NIR) spectroscopy to evaluate the edible safety of porcini species. RESULTS We found that deep learning is the most effective means to identify the edible safety of porcini, and the recognition accuracy was 100%, by comparing two pattern recognition tools, deep learning and partial least square discriminant analysis (PLS-DA). Although the accuracy of the PLS-DA test set is 96.10%, the poisonous porcini is not allowed to be wrongly judged. In addition, the cadmium (Cd) content of Leccinum rugosiceps in the Midu area exceeded the standard. Deep learning can trace Le. rugosiceps geographic origin with an accuracy of 100%. CONCLUSION The overall results show that deep learning methods based on FT-NIR can identify porcini that is at risk of being eaten. This has useful application prospects in food safety. © 2021 Society of Chemical Industry.
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Affiliation(s)
- Li Wang
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, China
- Medicinal Plants Research Institute, Yunnan Academy of Agricultural Sciences, Kunming, China
| | - Honggao Liu
- College of Agronomy and Life Sciences, Zhaotong University, Zhaotong, China
| | - Tao Li
- College of Resources and Environment, Yuxi Normal University, Yuxi, China
| | - Jieqing Li
- College of Resources and Environment, Yunnan Agricultural University, Kunming, China
| | - Yuanzhong Wang
- Medicinal Plants Research Institute, Yunnan Academy of Agricultural Sciences, Kunming, China
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