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Zhou J, Chen L, Foo HL, Cao Z, Lin Q. Changes in microbial diversity and volatile metabolites during the fermentation of Bulang pickled tea. Food Chem 2024; 458:140293. [PMID: 38970959 DOI: 10.1016/j.foodchem.2024.140293] [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: 02/27/2024] [Revised: 06/21/2024] [Accepted: 06/29/2024] [Indexed: 07/08/2024]
Abstract
The present study aimed to determine microbial community, short-chain fatty acids (SCFAs), and volatilome of Bulang pickled tea during fermentation. Sequencing of 16S rRNA and ITS revealed that Bualng pickled tea was dominated by Lactobacillus plantarum, unclassified Enterobacteriaceae, unclassified Debaryomyces, Candida metapsilosis, Cladosporium sphaerospermum, and unclassified Aspergillus. The overall contents of SCFAs increased, with acetic acid showing the highest content. A total of 398 differential volatile metabolites were detected using differential metabolomics analysis. Out of these different volatile compounds, ten key volatile compounds including (Z)-4-heptenal, 1-(2-thienyl)-ethanone, 5-methyl-(E)-2-hepten-4-one, 2-ethoxy-3-methylpyrazine, p-cresol, 2-methoxy-phenol, ethy-4-methylvalerate, 3-ethyl-phenol, p-menthene-8-thiol, and 2-s-butyl-3-methoxypyrazinewere were screened based on odor activity value (OAV). The Spearman correlation analysis showed a high correlation of SCFAs and volatile compounds with microorganisms, especially L. plantarum and C. sphaerospermum. This study provided a theoretical basis for elucidating the flavor quality formation mechanism of Bulang pickled tea.
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Affiliation(s)
- Jinping Zhou
- College of Food Science and Technology, Yunnan Agricultural University, Heilongtan, Kunming 650201, People's Republic of China
| | - Laifeng Chen
- College of Food Science and Technology, Yunnan Agricultural University, Heilongtan, Kunming 650201, People's Republic of China
| | - Hooi Ling Foo
- Department of Bioprocess Technology, Faculty of Biotechnology & Biomolecular Sciences, Universiti Putra Malaysia, 43400 UPM Serdang, Selangor, Malaysia; Research Laboratory of Probiotics and Cancer Therapeutics, UPM-MAKNA Cancer Research Laboratory (CANRES), Institute of Bioscience, Universiti Putra Malaysia, 43400 UPM Serdang, Selangor, Malaysia
| | - Zhenhui Cao
- Faculty of Animal Science and Technology, Yunnan Agricultural University, Heilongtan, Kunming 650201, People's Republic of China.
| | - Qiuye Lin
- College of Food Science and Technology, Yunnan Agricultural University, Heilongtan, Kunming 650201, People's Republic of China.
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Whole-Genome Sequencing and Comparative Genomics Analysis of the Wild Edible Mushroom ( Gomphus purpuraceus) Provide Insights into Its Potential Food Application and Artificial Domestication. Genes (Basel) 2022; 13:genes13091628. [PMID: 36140797 PMCID: PMC9498453 DOI: 10.3390/genes13091628] [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: 08/23/2022] [Revised: 09/04/2022] [Accepted: 09/07/2022] [Indexed: 11/17/2022] Open
Abstract
Gomphus purpuraceus (Iwade) Yokoyama is a species of wild fungi that grows in southwest China, considered an edible and medicinal fungus with potential commercial prospects. However, the detailed mechanisms related to the development of mycelium and the formation of the fruiting body are unclear. To obtain a comprehensive overview of genetic features, whole-genome and comparative genomics analyses of G. purpuraceus were performed. High-quality DNA was extracted from the mycelium, which was isolated from a fresh fruiting body of G. purpuraceus. The DNA sample was subjected to sequencing using Illumina and Oxford Nanopore sequencing platforms. A genome assembly totaling 40.15 Mb in 50 contigs with an N50 length of 2.06 Mb was generated, and 8705 putative predicted genes were found. Subsequently, phylogenetic analysis revealed a close evolutionary relationship between G. purpuraceus and Gomphus bonarii. Moreover, a total of 403 carbohydrate-active enzymes (CAZymes) were identified in G. purpuraceus, which included 147 glycoside hydrolases (GHs), 85 glycosyl transferases (GTs), 8 polysaccharide lyases (PLs), 76 carbohydrate esterases (CEs), 57 auxiliary activities (AAs) and 30 carbohydrate-binding modules (CBMs). Compared with the other 13 fungi (Laccaria bicolor, Russula virescens, Boletus edulis, etc.), the number and distribution of CAZymes in G. purpuraceus were similar to other mycorrhizal fungi. Furthermore, the optimization of culture medium for G. purpuraceus showed the efficient utilization of disaccharides such as sucrose and maltose. The genome of G. purpuraceus provides new insights into its niche, food applications and potential artificial domestication.
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Sridhar B, Wilhelm RC, Debenport SJ, Fahey TJ, Buckley DH, Goodale CL. Microbial community shifts correspond with suppression of decomposition 25 years after liming of acidic forest soils. GLOBAL CHANGE BIOLOGY 2022; 28:5399-5415. [PMID: 35770362 DOI: 10.1111/gcb.16321] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/03/2022] [Accepted: 05/03/2022] [Indexed: 06/15/2023]
Abstract
Microbial community structure and function regularly covary with soil pH, yet effects of these interactions on soil carbon are rarely tested experimentally within natural ecosystems. We investigated the enduring (25 year) impacts of liming on microbial community structure and decomposition at an acidic northern hardwood forest, where experimental liming increased pH one unit and surprisingly doubled the organic carbon stocks of the forest floor. We show that this increase in carbon storage corresponded with restructuring of the bacterial and fungal communities that drive decomposition. In the Oe horizon, liming reduced the activities of five extracellular enzymes that mediate decomposition, while the Oa horizon showed an especially large (64%) reduction in the activity of a sixth, peroxidase, which is an oxidative enzyme central to lignocellulose degradation. Decreased enzyme activities corresponded with loss of microbial taxa important for lignocellulose decay, including large reductions in the dominant ectomycorrhizal genera Russula and Cenococcum, saprotrophic and wood decaying fungi, and Actinobacteria (Thermomonosporaceae). These results demonstrate the importance of pH as a dominant regulator of microbial community structure and illustrate how changes to this structure can produce large, otherwise unexpected increases in carbon storage in forest soils.
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Affiliation(s)
- Bhavya Sridhar
- Department of Ecology & Evolutionary Biology, Cornell University, Ithaca, New York, USA
| | - Roland C Wilhelm
- School of Integrative Plant Science, Cornell University, Ithaca, New York, USA
| | - Spencer J Debenport
- School of Integrative Plant Science, Cornell University, Ithaca, New York, USA
| | - Timothy J Fahey
- Department of Natural Resources, Cornell University, Ithaca, New York, USA
| | - Daniel H Buckley
- School of Integrative Plant Science, Cornell University, Ithaca, New York, USA
| | - Christine L Goodale
- Department of Ecology & Evolutionary Biology, Cornell University, Ithaca, New York, USA
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Mayer M, Rewald B, Matthews B, Sanden H, Rosinger C, Katzensteiner K, Gorfer M, Berger H, Tallian C, Berger TW, Godbold DL. Soil fertility relates to fungal-mediated decomposition and organic matter turnover in a temperate mountain forest. THE NEW PHYTOLOGIST 2021; 231:777-790. [PMID: 34013982 PMCID: PMC7611052 DOI: 10.1111/nph.17421] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/16/2020] [Accepted: 04/08/2021] [Indexed: 05/05/2023]
Abstract
Fungi are known to exert a significant influence over soil organic matter (SOM) turnover, however understanding of the effects of fungal community structure on SOM dynamics and its consequences for ecosystem fertility is fragmentary. Here we studied soil fungal guilds and SOM decomposition processes along a fertility gradient in a temperate mountain beech forest. High-throughput sequencing was used to investigate fungal communities. Carbon and nitrogen stocks, enzymatic activity and microbial respiration were measured. While ectomycorrhizal fungal abundance was not related to fertility, saprotrophic ascomycetes showed higher relative abundances under more fertile conditions. The activity of oxidising enzymes and respiration rates in mineral soil were related positively to fertility and saprotrophic fungi. In addition, organic layer carbon and nitrogen stocks were lower on the more fertile plots, although tree biomass and litter input were higher. Together, the results indicated a faster SOM turnover at the fertile end of the gradient. We suggest that there is a positive feedback mechanism between SOM turnover and fertility that is mediated by soil fungi to a significant extent. By underlining the importance of fungi for soil fertility and plant growth, these findings furthermore emphasise the dependency of carbon cycling on fungal communities below ground.
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Affiliation(s)
- Mathias Mayer
- Forest Soils and Biogeochemistry, Swiss Federal Institute for Forest, Snow and Landscape Research (WSL), Zürcherstrasse 111, Birmensdorf 8903, Switzerland
- Department of Forest and Soil Sciences, Institute of Forest Ecology, University of Natural Resources and Life Sciences (BOKU), Peter-Jordan Straße 82, Vienna 1190, Austria
| | - Boris Rewald
- Department of Forest and Soil Sciences, Institute of Forest Ecology, University of Natural Resources and Life Sciences (BOKU), Peter-Jordan Straße 82, Vienna 1190, Austria
| | - Bradley Matthews
- Department of Forest and Soil Sciences, Institute of Forest Ecology, University of Natural Resources and Life Sciences (BOKU), Peter-Jordan Straße 82, Vienna 1190, Austria
- Environment Agency Austria, Spittelauer Lände 5, Vienna 1090, Austria
| | - Hans Sanden
- Department of Forest and Soil Sciences, Institute of Forest Ecology, University of Natural Resources and Life Sciences (BOKU), Peter-Jordan Straße 82, Vienna 1190, Austria
| | - Christoph Rosinger
- Department of Forest and Soil Sciences, Institute of Forest Ecology, University of Natural Resources and Life Sciences (BOKU), Peter-Jordan Straße 82, Vienna 1190, Austria
- Terrestrial Ecology Group, Institute of Zoology, University of Cologne, Zülpicher Straße 47b, Cologne 50674, Germany
| | - Klaus Katzensteiner
- Department of Forest and Soil Sciences, Institute of Forest Ecology, University of Natural Resources and Life Sciences (BOKU), Peter-Jordan Straße 82, Vienna 1190, Austria
| | - Markus Gorfer
- Bioresources Unit, Center for Health & Bioresources, Austrian Institute of Technology GmbH (AIT), Konrad-Lorenz-Straße 24, Tulln 3430, Austria
| | - Harald Berger
- Symbiocyte, Vorgartenstraße 145, Vienna 1020, Austria
| | - Claudia Tallian
- Bioresources Unit, Center for Health & Bioresources, Austrian Institute of Technology GmbH (AIT), Konrad-Lorenz-Straße 24, Tulln 3430, Austria
| | - Torsten W. Berger
- Department of Forest and Soil Sciences, Institute of Forest Ecology, University of Natural Resources and Life Sciences (BOKU), Peter-Jordan Straße 82, Vienna 1190, Austria
| | - Douglas L. Godbold
- Department of Forest and Soil Sciences, Institute of Forest Ecology, University of Natural Resources and Life Sciences (BOKU), Peter-Jordan Straße 82, Vienna 1190, Austria
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Ma W, Yang Z, Hou S, Ma Q, Liang L, Wang G, Liang C, Zhao T. Effects of Living Cover on the Soil Microbial Communities and Ecosystem Functions of Hazelnut Orchards. FRONTIERS IN PLANT SCIENCE 2021; 12:652493. [PMID: 33841481 PMCID: PMC8033216 DOI: 10.3389/fpls.2021.652493] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/12/2021] [Accepted: 02/26/2021] [Indexed: 06/12/2023]
Abstract
Living cover is an important management measure for orchards in China, and has certain influences on soil properties, microorganisms, and the micro-ecological environment. However, there are few studies on the effects of living cover on the soil changes in hazelnut orchards. In this study, we compared the soils of living cover treatments with Vulpia myuros and the soils of no cover treatments, and analyzed the observed changes in soil properties, microorganisms, and microbial functions by using high-throughput ITS rDNA and 16S rRNA gene Illumina sequencing. The results demonstrated that the total organic carbon content in the 20-40 cm deep soils under the living cover treatments increased by 32.87 and 14.82% in May and July, respectively, compared with those under the no cover treatments. The living cover treatment with V. myuros also significantly increased the contents of total phosphorus (TP), total nitrogen (TN), available phosphorus (AP), and available potassium (AK) in the soil samples. Moreover, the influence of seasons was not as significant as that of soil depth. The living cover treatment also significantly improved the soil enzyme activity levels. The results demonstrated that Ascomycota, Mortierellomycota and Basidiomycota were the dominant fungal phyla in all samples, while Proteobacteria, Actinobacteria, Acidobacteria, Firmicutes, and Chloroflexi were the dominant bacterial phyla, but the different treatments impacted the compositions of fungal and bacterial communities. Principal component analysis (PCA) showed that living cover with V. myuros significantly changed the soil fungal community structures whereas the bacterial community structures may be more sensitive to seasonal changes. At the microbial functional level, the living cover treatment increased the fungal operational taxonomic units (OTUs) of symbiotrophs and decreased that of pathotrophs. According to this study, we believe that the application of a living cover with V. myuros has a favorable regulating influence on soil properties, microbial communities and microbial function. This treatment can also reduce the use of herbicides, reduce the cost of orchard management, and store more carbon underground to achieve sustainable intensification of production in hazelnut orchards, so it can be considered as a management measure for hazelnut orchards.
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Affiliation(s)
- Wenxu Ma
- Key Laboratory of Tree Breeding and Cultivation of the State Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing, China
- Hazelnut Engineering and Technical Research Center of the State Forestry and Grassland Administration, Beijing, China
- National Hazelnut Industry Innovation Alliance, Beijing, China
| | - Zhen Yang
- Key Laboratory of Tree Breeding and Cultivation of the State Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing, China
- Hazelnut Engineering and Technical Research Center of the State Forestry and Grassland Administration, Beijing, China
- National Hazelnut Industry Innovation Alliance, Beijing, China
| | - Sihao Hou
- Key Laboratory of Tree Breeding and Cultivation of the State Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing, China
- Hazelnut Engineering and Technical Research Center of the State Forestry and Grassland Administration, Beijing, China
- National Hazelnut Industry Innovation Alliance, Beijing, China
| | - Qinghua Ma
- Key Laboratory of Tree Breeding and Cultivation of the State Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing, China
- Hazelnut Engineering and Technical Research Center of the State Forestry and Grassland Administration, Beijing, China
- National Hazelnut Industry Innovation Alliance, Beijing, China
| | - Lisong Liang
- Key Laboratory of Tree Breeding and Cultivation of the State Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing, China
- Hazelnut Engineering and Technical Research Center of the State Forestry and Grassland Administration, Beijing, China
- National Hazelnut Industry Innovation Alliance, Beijing, China
| | - Guixi Wang
- Key Laboratory of Tree Breeding and Cultivation of the State Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing, China
- Hazelnut Engineering and Technical Research Center of the State Forestry and Grassland Administration, Beijing, China
- National Hazelnut Industry Innovation Alliance, Beijing, China
| | - Chunli Liang
- Liaoning Agricultural Technical College, Yingkou, China
| | - Tiantian Zhao
- Key Laboratory of Tree Breeding and Cultivation of the State Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing, China
- Hazelnut Engineering and Technical Research Center of the State Forestry and Grassland Administration, Beijing, China
- National Hazelnut Industry Innovation Alliance, Beijing, China
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Hamidović S, Cvijović GG, Waisi H, Životić L, Šoja SJ, Raičević V, Lalević B. Response of microbial community composition in soils affected by coal mine exploitation. ENVIRONMENTAL MONITORING AND ASSESSMENT 2020; 192:364. [PMID: 32409938 DOI: 10.1007/s10661-020-08305-2] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/09/2019] [Accepted: 04/21/2020] [Indexed: 06/11/2023]
Abstract
Surface mining activities, despite their benefits, lead to the deterioration of local and regional environmental quality and play a role in global ecosystem pollution. This research aimed to estimate the culturable microbial population structure at five locations near the opencast coal mine "Kakanj" (Bosnia and Herzegovina) via agar plate and phospholipid fatty acids (PLFA) method and to establish its relationship to the physical and chemical properties of soil. Using the ICP-OES method, the heavy metal pollution of all examined locations (overburden, former grass yard, forest, arable soil, and greenhouse) was observed. Substantial variations among the sites regarding the most expressed indicators of heavy metal pollution were noted; Cr, Pb, Ni, and Cu content ranged from 63.17 to 524.47, 20.57 to 349.47, 139.13 to 2785.67, and 25.97 to 458.73 mg/kg, respectively. In the overburden sample, considerable low microbial activity was detected; the bacterial count was approximately 6- to 18-fold lower in comparison with the other samples. PLFA analysis showed the reduction of microbial diversity, reflected through the prevalence of normal and branched saturated fatty acids, their ratio (ranged from 0.92 to 7.13), and the absence of fungal marker 18:2ω6 fatty acid. The principal component analysis showed a strong negative impact of heavy metals Na and B on main microbial and PLFA profiles. In contrast, stock of main chemical parameters, including Ca, K, Fe, and pH, was positively correlated with the microbial community structure.
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Affiliation(s)
- Saud Hamidović
- Faculty of Agricultural and Food Sciences, University of Sarajevo, Zmaja od Bosne 8, 71000, Sarajevo, Bosnia and Herzegovina
| | - Gordana Gojgić Cvijović
- Department of Chemistry, Institute of Chemistry, Technology and Metallurgy, University of Belgrade, Njegoševa 12, Belgrade, 11000, Serbia
| | - Hadi Waisi
- Faculty of Ecology and Environmental Protection, University Union - Nikola Tesla, Cara Dušana 62-64, Belgrade, 11000, Serbia
- Institute of General and Physical Chemistry, University of Belgrade, Studentski trg 12/V, Belgrade, 11000, Serbia
| | - Ljubomir Životić
- Faculty of Agriculture, University of Belgrade, Nemanjina 6, Belgrade-Zemun, 11080, Serbia
| | | | - Vera Raičević
- Faculty of Agriculture, University of Belgrade, Nemanjina 6, Belgrade-Zemun, 11080, Serbia
| | - Blažo Lalević
- Faculty of Agriculture, University of Belgrade, Nemanjina 6, Belgrade-Zemun, 11080, Serbia.
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Howard MM, Kao-Kniffin J, Kessler A. Shifts in plant-microbe interactions over community succession and their effects on plant resistance to herbivores. THE NEW PHYTOLOGIST 2020; 226:1144-1157. [PMID: 31943213 DOI: 10.1111/nph.16430] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/28/2019] [Accepted: 01/06/2020] [Indexed: 05/23/2023]
Abstract
Soil microorganisms can influence the development of complex plant phenotypes, including resistance to herbivores. This microbiome-mediated plasticity may be particularly important for plant species that persist in environments with drastically changing herbivore pressure, for example over community succession. We established a 15-yr gradient of old-field succession to examine the herbivore resistance and rhizosphere microbial communities of Solidago altissima plants in a large-scale field experiment. To assess the functional effects of these successional microbial shifts, we inoculated S. altissima plants with microbiomes from the 2nd , 6th and 15th successional years in a glasshouse and compared their herbivore resistance. The resistance of S. altissima plants to herbivores changed over succession, with concomitant shifts in the rhizosphere microbiome. Late succession microbiomes conferred the strongest herbivore resistance to S. altissima plants in a glasshouse experiment, paralleling the low levels of herbivory observed in the oldest communities in the field. While many factors change over succession and may contribute to the shifts in rhizosphere communities and herbivore resistance we observed, our results indicated that soil microbial shifts alone can alter plants' interactions with herbivores. Our findings suggest that changes in soil microbial communities over succession can play an important role in enhancing plant resistance to herbivores.
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Affiliation(s)
- Mia M Howard
- Plant Biology Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853, USA
| | - Jenny Kao-Kniffin
- Horticulture Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853, USA
| | - André Kessler
- Department of Ecology and Evolutionary Biology, Cornell University, Ithaca, NY, 14853, USA
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Meier IC, Tückmantel T, Heitkötter J, Müller K, Preusser S, Wrobel TJ, Kandeler E, Marschner B, Leuschner C. Root exudation of mature beech forests across a nutrient availability gradient: the role of root morphology and fungal activity. THE NEW PHYTOLOGIST 2020; 226:583-594. [PMID: 31868933 DOI: 10.1111/nph.16389] [Citation(s) in RCA: 44] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/10/2019] [Accepted: 12/03/2019] [Indexed: 06/10/2023]
Abstract
Root exudation is a key plant function with a large influence on soil organic matter dynamics and plant-soil feedbacks in forest ecosystems. Yet despite its importance, the main ecological drivers of root exudation in mature forest trees remain to be identified. During two growing seasons, we analyzed the dependence of in situ collected root exudates on root morphology, soil chemistry and nutrient availability in six mature European beech (Fagus sylvatica L.) forests on a broad range of bedrock types. Root morphology was a major driver of root exudation across the nutrient availability gradient. A doubling of specific root length exponentially increased exudation rates of mature trees by c. 5-fold. Root exudation was also closely negatively related to soil pH and nitrogen (N) availability. At acidic and N-poor sites, where fungal biomass was reduced, exudation rates were c. 3-fold higher than at N- and base-richer sites and correlated negatively with the activity of enzymes degrading less bioavailable carbon (C) and N in the bulk soil. We conclude that root exudation increases on highly acidic, N-poor soils, in which fungal activity is reduced and a greater portion of the assimilated plant C is shifted to the external ecosystem C cycle.
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Affiliation(s)
- Ina C Meier
- Plant Ecology, Albrecht-von-Haller Institute for Plant Sciences, University of Goettingen, 37073, Göttingen, Germany
| | - Timo Tückmantel
- Plant Ecology, Albrecht-von-Haller Institute for Plant Sciences, University of Goettingen, 37073, Göttingen, Germany
| | - Julian Heitkötter
- Soil Science and Soil Ecology, Institute of Geography, Ruhr-Universität Bochum, 44801, Bochum, Germany
| | - Karolin Müller
- Institute of Soil Science and Land Evaluation, Soil Biology Department, University of Hohenheim, 70599, Stuttgart, Germany
| | - Sebastian Preusser
- Institute of Soil Science and Land Evaluation, Soil Biology Department, University of Hohenheim, 70599, Stuttgart, Germany
| | - Thomas J Wrobel
- Institute of Plant Biochemistry, Cluster of Excellence on Plant Sciences (CEPLAS), Heinrich Heine University Düsseldorf, 40225, Düsseldorf, Germany
| | - Ellen Kandeler
- Institute of Soil Science and Land Evaluation, Soil Biology Department, University of Hohenheim, 70599, Stuttgart, Germany
| | - Bernd Marschner
- Soil Science and Soil Ecology, Institute of Geography, Ruhr-Universität Bochum, 44801, Bochum, Germany
| | - Christoph Leuschner
- Plant Ecology, Albrecht-von-Haller Institute for Plant Sciences, University of Goettingen, 37073, Göttingen, Germany
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9
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Argiroff WA, Zak DR, Upchurch RA, Salley SO, Grandy AS. Anthropogenic N deposition alters soil organic matter biochemistry and microbial communities on decaying fine roots. GLOBAL CHANGE BIOLOGY 2019; 25:4369-4382. [PMID: 31314956 DOI: 10.1111/gcb.14770] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/20/2019] [Accepted: 07/06/2019] [Indexed: 06/10/2023]
Abstract
Fine root litter is a primary source of soil organic matter (SOM), which is a globally important pool of C that is responsive to climate change. We previously established that ~20 years of experimental nitrogen (N) deposition has slowed fine root decay and increased the storage of soil carbon (C; +18%) across a widespread northern hardwood forest ecosystem. However, the microbial mechanisms that have directly slowed fine root decay are unknown. Here, we show that experimental N deposition has decreased the relative abundance of Agaricales fungi (-31%) and increased that of partially ligninolytic Actinobacteria (+24%) on decaying fine roots. Moreover, experimental N deposition has increased the relative abundance of lignin-derived compounds residing in SOM (+53%), and this biochemical response is significantly related to shifts in both fungal and bacterial community composition. Specifically, the accumulation of lignin-derived compounds in SOM is negatively related to the relative abundance of ligninolytic Mycena and Kuehneromyces fungi, and positively related to Microbacteriaceae. Our findings suggest that by altering the composition of microbial communities on decaying fine roots such that their capacity for lignin degradation is reduced, experimental N deposition has slowed fine root litter decay, and increased the contribution of lignin-derived compounds from fine roots to SOM. The microbial responses we observed may explain widespread findings that anthropogenic N deposition increases soil C storage in terrestrial ecosystems. More broadly, our findings directly link composition to function in soil microbial communities, and implicate compositional shifts in mediating biogeochemical processes of global significance.
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Affiliation(s)
- William A Argiroff
- School for Environment and Sustainability, University of Michigan, Ann Arbor, MI, USA
| | - Donald R Zak
- School for Environment and Sustainability, University of Michigan, Ann Arbor, MI, USA
- Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI, USA
| | - Rima A Upchurch
- School for Environment and Sustainability, University of Michigan, Ann Arbor, MI, USA
| | - Sydney O Salley
- School for Environment and Sustainability, University of Michigan, Ann Arbor, MI, USA
| | - A Stuart Grandy
- Department of Natural Resources and the Environment, University of New Hampshire, Durham, NH, USA
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10
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Fungal guilds are evenly distributed along a vertical spruce forest soil profile while individual fungi show pronounced niche partitioning. Mycol Prog 2018. [DOI: 10.1007/s11557-018-1405-6] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
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11
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Anthropogenic N Deposition Alters the Composition of Expressed Class II Fungal Peroxidases. Appl Environ Microbiol 2018; 84:AEM.02816-17. [PMID: 29453258 DOI: 10.1128/aem.02816-17] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2017] [Accepted: 02/09/2018] [Indexed: 01/13/2023] Open
Abstract
Here, we present evidence that ca. 20 years of experimental N deposition altered the composition of lignin-decaying class II peroxidases expressed by forest floor fungi, a response which has occurred concurrently with reductions in plant litter decomposition and a rapid accumulation of soil organic matter. This finding suggests that anthropogenic N deposition has induced changes in the biological mediation of lignin decay, the rate limiting step in plant litter decomposition. Thus, an altered composition of transcripts for a critical gene that is associated with terrestrial C cycling may explain the increased soil C storage under long-term increases in anthropogenic N deposition.IMPORTANCE Fungal class II peroxidases are enzymes that mediate the rate-limiting step in the decomposition of plant material, which involves the oxidation of lignin and other polyphenols. In field experiments, anthropogenic N deposition has increased soil C storage in forests, a result which could potentially arise from anthropogenic N-induced changes in the composition of class II peroxidases expressed by the fungal community. In this study, we have gained unique insight into how anthropogenic N deposition, a widespread agent of global change, affects the expression of a functional gene encoding an enzyme that plays a critical role in a biologically mediated ecosystem process.
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Žifčáková L, Větrovský T, Lombard V, Henrissat B, Howe A, Baldrian P. Feed in summer, rest in winter: microbial carbon utilization in forest topsoil. MICROBIOME 2017; 5:122. [PMID: 28923122 PMCID: PMC5604414 DOI: 10.1186/s40168-017-0340-0] [Citation(s) in RCA: 71] [Impact Index Per Article: 10.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/16/2017] [Accepted: 09/12/2017] [Indexed: 05/21/2023]
Abstract
BACKGROUND Evergreen coniferous forests contain high stocks of organic matter. Significant carbon transformations occur in litter and soil of these ecosystems, making them important for the global carbon cycle. Due to seasonal allocation of photosynthates to roots, carbon availability changes seasonally in the topsoil. The aim of this paper was to describe the seasonal differences in C source utilization and the involvement of various members of soil microbiome in this process. RESULTS Here, we show that microorganisms in topsoil encode a diverse set of carbohydrate-active enzymes, including glycoside hydrolases and auxiliary enzymes. While the transcription of genes encoding enzymes degrading reserve compounds, such as starch or trehalose, was high in soil in winter, summer was characterized by high transcription of ligninolytic and cellulolytic enzymes produced mainly by fungi. Fungi strongly dominated the transcription in litter and an equal contribution of bacteria and fungi was found in soil. The turnover of fungal biomass appeared to be faster in summer than in winter, due to high activity of enzymes targeting its degradation, indicating fast growth in both litter and soil. In each enzyme family, hundreds to thousands of genes were typically transcribed simultaneously. CONCLUSIONS Seasonal differences in the transcription of glycoside hydrolases and auxiliary enzyme genes are more pronounced in soil than in litter. Our results suggest that mainly fungi are involved in decomposition of recalcitrant biopolymers in summer, while bacteria replace them in this role in winter. Transcripts of genes encoding enzymes targeting plant biomass biopolymers, reserve compounds and fungal cell walls were especially abundant in the coniferous forest topsoil.
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Affiliation(s)
- Lucia Žifčáková
- Institute of Microbiology of the CAS, Vídeňská 1083, 14220 Praha 4, Czech Republic
- Faculty of Science, Charles University, Albertov 6, 128 43 Praha 2, Czech Republic
| | - Tomáš Větrovský
- Institute of Microbiology of the CAS, Vídeňská 1083, 14220 Praha 4, Czech Republic
| | - Vincent Lombard
- Architecture et Fonction des Macromolécules Biologiques, CNRS, Aix-Marseille Université, Marseille, France
- INRA, USC 1408 AFMB, Marseille, France
| | - Bernard Henrissat
- Architecture et Fonction des Macromolécules Biologiques, CNRS, Aix-Marseille Université, Marseille, France
- INRA, USC 1408 AFMB, Marseille, France
- Department of Biological Sciences, King Abdulaziz University, Jeddah, Saudi Arabia
| | | | - Petr Baldrian
- Institute of Microbiology of the CAS, Vídeňská 1083, 14220 Praha 4, Czech Republic
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Chatterjee S, Sarma MK, Deb U, Steinhauser G, Walther C, Gupta DK. Mushrooms: from nutrition to mycoremediation. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2017; 24:19480-19493. [PMID: 28770504 DOI: 10.1007/s11356-017-9826-3] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/03/2017] [Accepted: 07/24/2017] [Indexed: 06/07/2023]
Abstract
Mushrooms are well known as important food items. The uses of mushrooms in the cuisine are manifolds and are being utilized for thousands of years in both Oriental and Occidental cultures. Medicinal properties of mushrooms show an immense potential as drugs for the treatment of various diseases as they are rich in a great variety of phytochemicals. In this review, we attempted to encompass the recent knowledge and scientific advancement about mushrooms and their utilization as food or curative properties, along with their natural ability to accumulate (heavy) metals/radionuclides, which leads to an important aspect of bioremediation. However, accumulation of heavy metals and radionuclides from natural or anthropogenic sources also involves potential nutritional hazards upon consumption. These hazards have been pointed out in this review incorporating a selection of the most recently published literature.
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Affiliation(s)
- Soumya Chatterjee
- Defence Research Laboratory, DRDO, Post Bag No. 02, Tezpur, Assam, 784001, India
| | - Mukul K Sarma
- Defence Research Laboratory, DRDO, Post Bag No. 02, Tezpur, Assam, 784001, India
| | - Utsab Deb
- Defence Research Laboratory, DRDO, Post Bag No. 02, Tezpur, Assam, 784001, India
| | - Georg Steinhauser
- Gottfried Wilhelm Leibniz Universität Hannover, Institut für Radioökologie und Strahlenschutz (IRS), Herrenhäuser Str. 2, 30419, Hannover, Germany
| | - Clemens Walther
- Gottfried Wilhelm Leibniz Universität Hannover, Institut für Radioökologie und Strahlenschutz (IRS), Herrenhäuser Str. 2, 30419, Hannover, Germany
| | - Dharmendra K Gupta
- Gottfried Wilhelm Leibniz Universität Hannover, Institut für Radioökologie und Strahlenschutz (IRS), Herrenhäuser Str. 2, 30419, Hannover, Germany.
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14
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Extracellular redox cycling and hydroxyl radical production occurs widely in lichenized Ascomycetes. Fungal Biol 2017; 121:582-588. [DOI: 10.1016/j.funbio.2017.03.005] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2016] [Revised: 03/04/2017] [Accepted: 03/29/2017] [Indexed: 02/03/2023]
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Boiko SM. Population structure of the wood-decay fungus Trichaptum abietinum (J. Dicks.) Ryvarden in the Carpathian National Nature Park (Ukraine). BIODIVERSITY: RESEARCH AND CONSERVATION 2016. [DOI: 10.1515/biorc-2016-0017] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
Abstract
This paper provides a list of intracellular isozyme systems of Trichaptum abietinum (J. Dicks.) Ryvarden (Basidiomycetes) that can be used for population studies. Population structure of the fungus within the Carpathian National Nature Park (CNNP) was established. Percent of polymorphic loci in general was 83.3%. Groups of rare alleles were assigned Sod88
, Sod138
, Sdh191, and Est111
. Calculated Wright's fixation index allowed establishing privilege of the heterozygotes on locus Acp and homozygotes on locus Sod. The population of T. abietinum in the CNNP was in equilibrium state.
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Affiliation(s)
- Sergey M. Boiko
- Institute for Evolutionary Ecology, National Academy of Sciences of Ukraine, acad. Lebedev 37, Kyiv, 03143, Ukraine; Donetsk National University, 600-richya 21, Vinnytsia, 21021, Ukraine
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Heilmann-Clausen J, Maruyama PK, Bruun HH, Dimitrov D, Laessøe T, Frøslev TG, Dalsgaard B. Citizen science data reveal ecological, historical and evolutionary factors shaping interactions between woody hosts and wood-inhabiting fungi. THE NEW PHYTOLOGIST 2016; 212:1072-1082. [PMID: 27659274 DOI: 10.1111/nph.14194] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/27/2016] [Accepted: 08/08/2016] [Indexed: 05/04/2023]
Abstract
Woody plants host diverse communities of associated organisms, including wood-inhabiting fungi. In this group, host effects on species richness and interaction network structure are not well understood, especially not at large geographical scales. We investigated ecological, historical and evolutionary determinants of fungal species richness and network modularity, that is, subcommunity structure, across woody hosts in Denmark, using a citizen science data set comprising > 80 000 records of > 1000 fungal species on 91 genera of woody plants. Fungal species richness was positively related to host size, wood pH, and the number of species in the host genus, with limited influence of host frequency and host history, that is, time since host establishment in the area. Modularity patterns were unaffected by host history, but largely reflected host phylogeny. Notably, fungal communities differed substantially between angiosperm and gymnosperm hosts. Host traits and evolutionary history appear to be more important than host frequency and recent history in structuring interactions between hosts and wood-inhabiting fungi. High wood acidity appears to act as a stress factor reducing fungal species richness, while large host size, providing increased niche diversity, enhances it. In some fungal groups that are known to interact with live host cells in the establishment phase, host selectivity is common, causing a modular community structure.
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Affiliation(s)
- Jacob Heilmann-Clausen
- Centre for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, Copenhagen, DK-2100, Denmark
| | - Pietro K Maruyama
- Centre for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, Copenhagen, DK-2100, Denmark
- Departamento de Biologia Vegetal, Universidade Estadual de Campinas (UNICAMP), Cx. Postal 6109, Campinas, SP, CEP: 13083-862, Brazil
| | - Hans Henrik Bruun
- Department of Biology, University of Copenhagen, Copenhagen, DK-2100, Denmark
| | - Dimitar Dimitrov
- Natural History Museum, University of Oslo, PO Box 1172 Blindern, Oslo, NO-0318, Norway
| | - Thomas Laessøe
- Centre for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, Copenhagen, DK-2100, Denmark
- Department of Biology, University of Copenhagen, Copenhagen, DK-2100, Denmark
| | - Tobias Guldberg Frøslev
- Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Copenhagen, DK-1350, Denmark
| | - Bo Dalsgaard
- Centre for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, Copenhagen, DK-2100, Denmark
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Širić I, Humar M, Kasap A, Kos I, Mioč B, Pohleven F. Heavy metal bioaccumulation by wild edible saprophytic and ectomycorrhizal mushrooms. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2016; 23:18239-18252. [PMID: 27272918 DOI: 10.1007/s11356-016-7027-0] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/14/2016] [Accepted: 05/30/2016] [Indexed: 06/06/2023]
Abstract
Heavy metals cause serious problems in the environment, and they can be accumulated in organisms, especially in the higher fungi. The concentration of Ni, Cr, Pb, Cd, and Hg in 10 species of edible mushrooms in Medvednica Nature Park, Croatia was therefore determined. In addition, the similarity between the studied species was determined by cluster analysis based on concentrations of the aforementioned metals in the fruiting bodies. The contents of nickel, chromium, lead, cadmium, and mercury in the fruiting bodies of mushrooms were obtained by X-ray fluorescence spectrometry. The highest concentrations of Ni (3.62 mg kg(-1)), Cr (3.01 mg kg(-1)), and Cd (2.67 mg kg(-1)) were determined in Agaricus campestris. The highest concentration of Pb (1.67 mg kg(-1)) was determined in Macrolepiota procera, and the highest concentration of Hg (2.39 mg kg(-1)) was determined in Boletus edulis. The concentration of all heavy metals significantly differed (p < 0.001) between examined saprophytic and ectomycorrhizal mushrooms. Considering anatomical part of the fruiting body (cap-stipe), a considerably higher concentration of the analyzed elements was found in the cap for all mushroom species. According to calculated bioconcentration factors, all the examined species were found to be bioexclusors of Ni, Cr, and Pb and bioaccumulators of Cd and Hg. Cluster analysis performed on the basis of the accumulation of the studied metals revealed great phenotypic similarity of mushroom species belonging to the same genus and partial similarity of species of the same ecological affiliation.
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Affiliation(s)
- Ivan Širić
- Department of Animal Science and Technology, Faculty of Agriculture, University of Zagreb, Svetosimunska 25, 10000, Zagreb, Croatia
| | - Miha Humar
- Department of Wood Science and Technology, Biotechnical Faculty, University of Ljubljana, Jamnikarjeva 101, 1000, Ljubljan, Slovenia.
| | - Ante Kasap
- Department of Animal Science and Technology, Faculty of Agriculture, University of Zagreb, Svetosimunska 25, 10000, Zagreb, Croatia
| | - Ivica Kos
- Department of Animal Science and Technology, Faculty of Agriculture, University of Zagreb, Svetosimunska 25, 10000, Zagreb, Croatia
| | - Boro Mioč
- Department of Animal Science and Technology, Faculty of Agriculture, University of Zagreb, Svetosimunska 25, 10000, Zagreb, Croatia
| | - Franc Pohleven
- Department of Wood Science and Technology, Biotechnical Faculty, University of Ljubljana, Jamnikarjeva 101, 1000, Ljubljan, Slovenia
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19
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Bässler C, Halbwachs H, Karasch P, Holzer H, Gminder A, Krieglsteiner L, Gonzalez RS, Müller J, Brandl R. Mean reproductive traits of fungal assemblages are correlated with resource availability. Ecol Evol 2016; 6:582-92. [PMID: 26843941 PMCID: PMC4729255 DOI: 10.1002/ece3.1911] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2015] [Revised: 12/01/2015] [Accepted: 12/03/2015] [Indexed: 11/10/2022] Open
Abstract
Organisms have evolved a fascinating variety of strategies and organs for successful reproduction. Fruit bodies are the reproductive organ of fungi and vary considerably in size and shape among species. Our understanding of the mechanisms underlying the differences in fruit body size among species is still limited. Fruit bodies of saprotrophic fungi are smaller than those of mutualistic ectomycorrhizal fungi. If differences in fruit body size are determined by carbon acquisition, then mean reproductive traits of saprotrophic and ectomycorrhizal fungi assemblages should vary differently along gradients of resource availability as carbon acquisition seems more unpredictable and costly for saprotrophs than for ectomycorrhizal fungi. Here, we used 48 local inventories of fungal fruit bodies (plot size: 0.02 ha each) sampled along a gradient of resource availability (growing stock) across 3 years in the Bavarian Forest National Park in Germany to investigate regional and local factors that might influence the distribution of species with different reproductive traits, particularly fruit body size. As predicted, mean fruit body size of local assemblages of saprotrophic fungi was smaller than expected from the distribution of traits of the regional species pool across central and northern Europe, whereas that of ectomycorrhizal fungi did not differ from random expectation. Furthermore and also as expected, mean fruit body size of assemblages of saprotrophic fungi was significantly smaller than for assemblages of ectomycorrhizal species. However, mean fruit body sizes of not only saprotrophic species but also ectomycorrhizal species increased with resource availability, and the mean number of fruit bodies of both assemblages decreased. Our results indicate that the differences in carbon acquisition between saprotrophs and ectomycorrhizal species lead to differences in basic reproductive strategies, with implications for the breadth of their distribution. However, the differences in resource acquisition cannot explain detailed species distribution patterns at a finer, local scale based on their reproductive traits.
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Affiliation(s)
- Claus Bässler
- Bavarian Forest National ParkFreyunger Str. 294481GrafenauGermany
| | - Hans Halbwachs
- German Mycological SocietyDanziger Str. 2063916AmorbachGermany
| | - Peter Karasch
- Bavarian Mycological SocietySection Bavarian ForestAblegweg 994227RabensteinGermany
| | - Heinrich Holzer
- Bavarian Mycological SocietySection Bavarian ForestAblegweg 994227RabensteinGermany
| | - Andreas Gminder
- German Mycological SocietyDorfstrasse 2707751 JenaprießnitzGermany
| | | | - Ramiro Silveyra Gonzalez
- Chair of Remote Sensing and Landscape Information SystemsUniversity of Freiburg79106 FreiburgGermany
| | - Jörg Müller
- Bavarian Forest National ParkFreyunger Str. 294481GrafenauGermany
| | - Roland Brandl
- Animal EcologyDepartment of EcologyFaculty of BiologyPhilipps‐Universität Marburg35037MarburgGermany
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Bödeker ITM, Clemmensen KE, de Boer W, Martin F, Olson Å, Lindahl BD. Ectomycorrhizal Cortinarius species participate in enzymatic oxidation of humus in northern forest ecosystems. THE NEW PHYTOLOGIST 2014; 203:245-56. [PMID: 24725281 DOI: 10.1111/nph.12791] [Citation(s) in RCA: 155] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/13/2013] [Accepted: 02/28/2014] [Indexed: 05/22/2023]
Abstract
In northern forests, belowground sequestration of nitrogen (N) in complex organic pools restricts nutrient availability to plants. Oxidative extracellular enzymes produced by ectomycorrhizal fungi may aid plant N acquisition by providing access to N in macromolecular complexes. We test the hypotheses that ectomycorrhizal Cortinarius species produce Mn-dependent peroxidases, and that the activity of these enzymes declines at elevated concentrations of inorganic N. In a boreal pine forest and a sub-arctic birch forest, Cortinarius DNA was assessed by 454-sequencing of ITS amplicons and related to Mn-peroxidase activity in humus samples with- and without previous N amendment. Transcription of Cortinarius Mn-peroxidase genes was investigated in field samples. Phylogenetic analyses of Cortinarius peroxidase amplicons and genome sequences were performed. We found a significant co-localization of high peroxidase activity and DNA from Cortinarius species. Peroxidase activity was reduced by high ammonium concentrations. Amplification of mRNA sequences indicated transcription of Cortinarius Mn-peroxidase genes under field conditions. The Cortinarius glaucopus genome encodes 11 peroxidases - a number comparable to many white-rot wood decomposers. These results support the hypothesis that some ectomycorrhizal fungi--Cortinarius species in particular--may play an important role in decomposition of complex organic matter, linked to their mobilization of organically bound N.
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Affiliation(s)
- Inga T M Bödeker
- Department of Forest Mycology and Plant Pathology, Swedish University of Agricultural Sciences, Box 7026, 75007, Uppsala, Sweden; Southern Swedish Forest Research Centre, Swedish University of Agricultural Sciences, Box 49, 230 53, Alnarp, Sweden
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22
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Valentín L, Rajala T, Peltoniemi M, Heinonsalo J, Pennanen T, Mäkipää R. Loss of diversity in wood-inhabiting fungal communities affects decomposition activity in Norway spruce wood. Front Microbiol 2014; 5:230. [PMID: 24904544 PMCID: PMC4032996 DOI: 10.3389/fmicb.2014.00230] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2014] [Accepted: 04/29/2014] [Indexed: 01/24/2023] Open
Abstract
Hundreds of wood-inhabiting fungal species are now threatened, principally due to a lack of dead wood in intensively managed forests, but the consequences of reduced fungal diversity on ecosystem functioning are not known. Several experiments have shown that primary productivity is negatively affected by a loss of species, but the effects of microbial diversity on decomposition are less studied. We studied the relationship between fungal diversity and the in vitro decomposition rate of slightly, moderately and heavily decayed Picea abies wood with indigenous fungal communities that were diluted to examine the influence of diversity. Respiration rate, wood-degrading hydrolytic enzymes and fungal community structure were assessed during a 16-week incubation. The number of observed OTUs in DGGE was used as a measure of fungal diversity. Respiration rate increased between early- and late-decay stages. Reduced fungal diversity was associated with lower respiration rates during intermediate stages of decay, but no effects were detected at later stages. The activity of hydrolytic enzymes varied among decay stages and fungal dilutions. Our results suggest that functioning of highly diverse communities of the late-decay stage were more resistant to the loss of diversity than less diverse communities of early decomposers. This indicates the accumulation of functional redundancy during the succession of the fungal community in decomposing substrates.
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Affiliation(s)
- Lara Valentín
- Vantaa Research Unit, Finnish Forest Research Institute Vantaa, Finland ; Department of Chemical Engineering, Technical School of Engineering, Universitat Autònoma de Barcelona Barcelona, Spain
| | - Tiina Rajala
- Vantaa Research Unit, Finnish Forest Research Institute Vantaa, Finland
| | - Mikko Peltoniemi
- Vantaa Research Unit, Finnish Forest Research Institute Vantaa, Finland
| | - Jussi Heinonsalo
- Department of Food and Environmental Sciences, University of Helsinki Helsinki, Finland
| | - Taina Pennanen
- Vantaa Research Unit, Finnish Forest Research Institute Vantaa, Finland
| | - Raisa Mäkipää
- Vantaa Research Unit, Finnish Forest Research Institute Vantaa, Finland
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Gittel A, Bárta J, Kohoutová I, Mikutta R, Owens S, Gilbert J, Schnecker J, Wild B, Hannisdal B, Maerz J, Lashchinskiy N, Čapek P, Šantrůčková H, Gentsch N, Shibistova O, Guggenberger G, Richter A, Torsvik VL, Schleper C, Urich T. Distinct microbial communities associated with buried soils in the Siberian tundra. THE ISME JOURNAL 2014; 8:841-53. [PMID: 24335828 PMCID: PMC3960545 DOI: 10.1038/ismej.2013.219] [Citation(s) in RCA: 70] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/09/2013] [Revised: 10/21/2013] [Accepted: 11/06/2013] [Indexed: 01/22/2023]
Abstract
Cryoturbation, the burial of topsoil material into deeper soil horizons by repeated freeze-thaw events, is an important storage mechanism for soil organic matter (SOM) in permafrost-affected soils. Besides abiotic conditions, microbial community structure and the accessibility of SOM to the decomposer community are hypothesized to control SOM decomposition and thus have a crucial role in SOM accumulation in buried soils. We surveyed the microbial community structure in cryoturbated soils from nine soil profiles in the northeastern Siberian tundra using high-throughput sequencing and quantification of bacterial, archaeal and fungal marker genes. We found that bacterial abundances in buried topsoils were as high as in unburied topsoils. In contrast, fungal abundances decreased with depth and were significantly lower in buried than in unburied topsoils resulting in remarkably low fungal to bacterial ratios in buried topsoils. Fungal community profiling revealed an associated decrease in presumably ectomycorrhizal (ECM) fungi. The abiotic conditions (low to subzero temperatures, anoxia) and the reduced abundance of fungi likely provide a niche for bacterial, facultative anaerobic decomposers of SOM such as members of the Actinobacteria, which were found in significantly higher relative abundances in buried than in unburied topsoils. Our study expands the knowledge on the microbial community structure in soils of Northern latitude permafrost regions, and attributes the delayed decomposition of SOM in buried soils to specific microbial taxa, and particularly to a decrease in abundance and activity of ECM fungi, and to the extent to which bacterial decomposers are able to act as their functional substitutes.
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Affiliation(s)
- Antje Gittel
- Department of Biology, Centre for Geobiology, University of Bergen, Bergen, Norway
- Austrian Polar Research Institute, Vienna, Austria
| | - Jiří Bárta
- Department of Ecosystems Biology, University of South Bohemia, České Budějovice, Czech Republic
| | - Iva Kohoutová
- Department of Ecosystems Biology, University of South Bohemia, České Budějovice, Czech Republic
| | - Robert Mikutta
- Institut für Bodenkunde, Leibniz Universität Hannover, Hannover, Germany
| | - Sarah Owens
- Institute of Genomics and Systems Biology, Argonne National Laboratory, Argonne, IL, USA
- Computation Institute, University of Chicago, Chicago, IL, USA
| | - Jack Gilbert
- Institute of Genomics and Systems Biology, Argonne National Laboratory, Argonne, IL, USA
- Department of Ecology and Evolution, University of Chicago, Chicago, IL, USA
| | - Jörg Schnecker
- Austrian Polar Research Institute, Vienna, Austria
- Division of Terrestrial Ecosystem Research, Department of Microbiology and Ecosystem Science, University of Vienna, Vienna, Austria
| | - Birgit Wild
- Austrian Polar Research Institute, Vienna, Austria
- Division of Terrestrial Ecosystem Research, Department of Microbiology and Ecosystem Science, University of Vienna, Vienna, Austria
| | - Bjarte Hannisdal
- Department of Earth Science, Centre for Geobiology, University of Bergen, Bergen, Norway
| | - Joeran Maerz
- Division of Ecosystem Modelling, Institute of Coastal Research, Helmholtz Zentrum Geesthacht, Geesthacht, Germany
| | - Nikolay Lashchinskiy
- Central Siberian Botanical Garden, Siberian Branch of Russian Academy of Sciences, Novosibirsk, Russia
| | - Petr Čapek
- Department of Ecosystems Biology, University of South Bohemia, České Budějovice, Czech Republic
| | - Hana Šantrůčková
- Department of Ecosystems Biology, University of South Bohemia, České Budějovice, Czech Republic
| | - Norman Gentsch
- Institut für Bodenkunde, Leibniz Universität Hannover, Hannover, Germany
| | - Olga Shibistova
- Institut für Bodenkunde, Leibniz Universität Hannover, Hannover, Germany
- VN Sukachev Institute of Forest, Siberian Branch of Russian Academy of Sciences, Akademgorodok, Russia
| | - Georg Guggenberger
- Institut für Bodenkunde, Leibniz Universität Hannover, Hannover, Germany
| | - Andreas Richter
- Austrian Polar Research Institute, Vienna, Austria
- Division of Terrestrial Ecosystem Research, Department of Microbiology and Ecosystem Science, University of Vienna, Vienna, Austria
| | - Vigdis L Torsvik
- Department of Biology, Centre for Geobiology, University of Bergen, Bergen, Norway
| | - Christa Schleper
- Department of Biology, Centre for Geobiology, University of Bergen, Bergen, Norway
- Austrian Polar Research Institute, Vienna, Austria
- Division of Archaea Biology and Ecogenomics, Department of Ecogenomics and Systems Biology, University of Vienna, Vienna, Austria
| | - Tim Urich
- Austrian Polar Research Institute, Vienna, Austria
- Division of Archaea Biology and Ecogenomics, Department of Ecogenomics and Systems Biology, University of Vienna, Vienna, Austria
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Phillips LA, Ward V, Jones MD. Ectomycorrhizal fungi contribute to soil organic matter cycling in sub-boreal forests. THE ISME JOURNAL 2014; 8:699-713. [PMID: 24173458 PMCID: PMC3930324 DOI: 10.1038/ismej.2013.195] [Citation(s) in RCA: 60] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/08/2013] [Revised: 09/25/2013] [Accepted: 09/26/2013] [Indexed: 11/08/2022]
Abstract
Soils of northern temperate and boreal forests represent a large terrestrial carbon (C) sink. The fate of this C under elevated atmospheric CO2 and climate change is still uncertain. A fundamental knowledge gap is the extent to which ectomycorrhizal fungi (EMF) and saprotrophic fungi contribute to C cycling in the systems by soil organic matter (SOM) decomposition. In this study, we used a novel approach to generate and compare enzymatically active EMF hyphae-dominated and saprotrophic hyphae-enriched communities under field conditions. Fermentation-humus (FH)-filled mesh bags, surrounded by a sand barrier, effectively trapped EMF hyphae with a community structure comparable to that found in the surrounding FH layer, at both trophic and taxonomic levels. In contrast, over half the sequences from mesh bags with no sand barrier were identified as belonging to saprotrophic fungi. The EMF hyphae-dominated systems exhibited levels of hydrolytic and oxidative enzyme activities that were comparable to or higher than saprotroph-enriched systems. The enzymes assayed included those associated with both labile and recalcitrant SOM degradation. Our study shows that EMF hyphae are likely important contributors to current SOM turnover in sub-boreal systems. Our results also suggest that any increased EMF biomass that might result from higher below-ground C allocation by trees would not suppress C fluxes from sub-boreal soils.
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Affiliation(s)
- Lori A Phillips
- Department of Biology, University of British Columbia, Kelowna, British Columbia, Canada.
- Department of Environment and Primary Industries, Biosciences Research Division, Bundoora, Victoria, Australia.
| | - Valerie Ward
- Department of Biology, University of British Columbia, Kelowna, British Columbia, Canada
| | - Melanie D Jones
- Department of Biology, University of British Columbia, Kelowna, British Columbia, Canada
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Větrovský T, Steffen KT, Baldrian P. Potential of cometabolic transformation of polysaccharides and lignin in lignocellulose by soil Actinobacteria. PLoS One 2014; 9:e89108. [PMID: 24551229 PMCID: PMC3923840 DOI: 10.1371/journal.pone.0089108] [Citation(s) in RCA: 91] [Impact Index Per Article: 9.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2013] [Accepted: 01/18/2014] [Indexed: 11/25/2022] Open
Abstract
While it is known that several Actinobacteria produce enzymes that decompose polysaccharides or phenolic compounds in dead plant biomass, the occurrence of these traits in the environment remains largely unclear. The aim of this work was to screen isolated actinobacterial strains to explore their ability to produce extracellular enzymes that participate in the degradation of polysaccharides and their ability to cometabolically transform phenolic compounds of various complexities. Actinobacterial strains were isolated from meadow and forest soils and screened for their ability to grow on lignocellulose. The potential to transform 14C-labelled phenolic substrates (dehydrogenation polymer (DHP), lignin and catechol) and to produce a range of extracellular, hydrolytic enzymes was investigated in three strains of Streptomyces spp. that possessed high lignocellulose degrading activity. Isolated strains showed high variation in their ability to produce cellulose- and hemicellulose-degrading enzymes and were able to mineralise up to 1.1% and to solubilise up to 4% of poplar lignin and to mineralise up to 11.4% and to solubilise up to 64% of catechol, while only minimal mineralisation of DHP was observed. The results confirm the potential importance of Actinobacteria in lignocellulose degradation, although it is likely that the decomposition of biopolymers is limited to strains that represent only a minor portion of the entire community, while the range of simple, carbon-containing compounds that serve as sources for actinobacterial growth is relatively wide.
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Affiliation(s)
- Tomáš Větrovský
- Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Praha, Czech Republic
| | - Kari Timo Steffen
- Department of Applied Chemistry and Microbiology, University of Helsinki, Helsinki, Finland
| | - Petr Baldrian
- Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Praha, Czech Republic
- * E-mail:
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Hervé V, Le Roux X, Uroz S, Gelhaye E, Frey-Klett P. Diversity and structure of bacterial communities associated with Phanerochaete chrysosporium during wood decay. Environ Microbiol 2013; 16:2238-52. [PMID: 24286477 DOI: 10.1111/1462-2920.12347] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2013] [Accepted: 11/23/2013] [Indexed: 01/05/2023]
Abstract
Wood recycling is key to forest biogeochemical cycles, largely driven by microorganisms such as white-rot fungi which naturally coexist with bacteria in the environment. We have tested whether and to what extent the diversity of the bacterial community associated with wood decay is determined by wood and/or by white-rot fungus Phanerochaete chrysosporium. We combined a microcosm approach with an enrichment procedure, using beech sawdust inoculated with or without P.chrysosporium. During 18 weeks, we used 16S rRNA gene-based pyrosequencing to monitor the forest bacterial community inoculated into these microcosms. We found bacterial communities associated with wood to be substantially less diverse than the initial forest soil inoculum. The presence of most bacterial operational taxonomic units (OTUs) varied over time and between replicates, regardless of their treatment, suggestive of the stochastic processes. However, we observed two OTUs belonging to Xanthomonadaceae and Rhizobium, together representing 50% of the relative bacterial abundance, as consistently associated with the wood substrate, regardless of fungal presence. Moreover, after 12 weeks, the bacterial community composition based on relative abundance was significantly modified by the presence of the white-rot fungus. Effectively, members of the Burkholderia genus were always associated with P.chrysosporium, representing potential taxonomic bioindicators of the white-rot mycosphere.
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Affiliation(s)
- Vincent Hervé
- Interactions Arbres - Microorganismes, UMR1136, INRA, Champenoux, France; Interactions Arbres - Microorganismes, UMR1136, Université de Lorraine, Vandoeuvre-lès-Nancy, France
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Beckett RP, Zavarzina AG, Liers C. Oxidoreductases and cellulases in lichens: Possible roles in lichen biology and soil organic matter turnover. Fungal Biol 2013; 117:431-8. [DOI: 10.1016/j.funbio.2013.04.007] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2013] [Revised: 04/12/2013] [Accepted: 04/21/2013] [Indexed: 02/08/2023]
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Falandysz J, Borovička J. Macro and trace mineral constituents and radionuclides in mushrooms: health benefits and risks. Appl Microbiol Biotechnol 2013; 97:477-501. [PMID: 23179616 PMCID: PMC3546300 DOI: 10.1007/s00253-012-4552-8] [Citation(s) in RCA: 233] [Impact Index Per Article: 21.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2012] [Revised: 10/23/2012] [Accepted: 10/24/2012] [Indexed: 11/29/2022]
Abstract
This article reviews and updates data on macro and trace elements and radionuclides in edible wild-grown and cultivated mushrooms. A huge biodiversity of mushrooms and spread of certain species over different continents makes the study on their multi-element constituents highly challenging. A few edible mushrooms are widely cultivated and efforts are on to employ them (largely Agaricus spp., Pleurotus spp., and Lentinula edodes) in the production of selenium-enriched food (mushrooms) or nutraceuticals (by using mycelia) and less on species used by traditional medicine, e.g., Ganoderma lucidum. There are also attempts to enrich mushrooms with other elements than Se and a good example is enrichment with lithium. Since minerals of nutritional value are common constituents of mushrooms collected from natural habitats, the problem is however their co-occurrence with some hazardous elements including Cd, Pb, Hg, Ag, As, and radionuclides. Discussed is also the problem of erroneous data on mineral compounds determined in mushrooms.
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Affiliation(s)
- Jerzy Falandysz
- Institute of Environmental Sciences & Public Health, University of Gdańsk, Gdańsk, Poland.
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Voříšková J, Baldrian P. Fungal community on decomposing leaf litter undergoes rapid successional changes. ISME JOURNAL 2012; 7:477-86. [PMID: 23051693 DOI: 10.1038/ismej.2012.116] [Citation(s) in RCA: 331] [Impact Index Per Article: 27.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Fungi are considered the primary decomposers of dead plant biomass in terrestrial ecosystems. However, current knowledge regarding the successive changes in fungal communities during litter decomposition is limited. Here we explored the development of the fungal community over 24 months of litter decomposition in a temperate forest with dominant Quercus petraea using 454-pyrosequencing of the fungal internal transcribed spacer (ITS) region and cellobiohydrolase I (cbhI) genes, which encode exocellulases, to specifically address cellulose decomposers. To quantify the involvement of phyllosphere fungi in litter decomposition, the fungal communities in live leaves and leaves immediately before abscission were also analysed. The results showed rapid succession of fungi with dramatic changes in the composition of the fungal community. Furthermore, most of the abundant taxa only temporarily dominated in the substrate. Fungal diversity was lowest at leaf senescence, increased until month 4 and did not significantly change during subsequent decomposition. Highly diverse community of phyllosphere fungi inhabits live oak leaves 2 months before abscission, and these phyllosphere taxa comprise a significant share of the fungal community during early decomposition up to the fourth month. Sequences assigned to the Ascomycota showed highest relative abundances in live leaves and during the early stages of decomposition. In contrast, the relative abundance of sequences assigned to the Basidiomycota phylum, particularly basidiomycetous yeasts, increased with time. Although cellulose was available in the litter during all stages of decomposition, the community of cellulolytic fungi changed substantially over time. The results indicate that litter decomposition is a highly complex process mediated by various fungal taxa.
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Affiliation(s)
- Jana Voříšková
- Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Praha 4, Czech Republic.
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Genome sequence of the button mushroom Agaricus bisporus reveals mechanisms governing adaptation to a humic-rich ecological niche. Proc Natl Acad Sci U S A 2012; 109:17501-6. [PMID: 23045686 DOI: 10.1073/pnas.1206847109] [Citation(s) in RCA: 270] [Impact Index Per Article: 22.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Agaricus bisporus is the model fungus for the adaptation, persistence, and growth in the humic-rich leaf-litter environment. Aside from its ecological role, A. bisporus has been an important component of the human diet for over 200 y and worldwide cultivation of the "button mushroom" forms a multibillion dollar industry. We present two A. bisporus genomes, their gene repertoires and transcript profiles on compost and during mushroom formation. The genomes encode a full repertoire of polysaccharide-degrading enzymes similar to that of wood-decayers. Comparative transcriptomics of mycelium grown on defined medium, casing-soil, and compost revealed genes encoding enzymes involved in xylan, cellulose, pectin, and protein degradation are more highly expressed in compost. The striking expansion of heme-thiolate peroxidases and β-etherases is distinctive from Agaricomycotina wood-decayers and suggests a broad attack on decaying lignin and related metabolites found in humic acid-rich environment. Similarly, up-regulation of these genes together with a lignolytic manganese peroxidase, multiple copper radical oxidases, and cytochrome P450s is consistent with challenges posed by complex humic-rich substrates. The gene repertoire and expression of hydrolytic enzymes in A. bisporus is substantially different from the taxonomically related ectomycorrhizal symbiont Laccaria bicolor. A common promoter motif was also identified in genes very highly expressed in humic-rich substrates. These observations reveal genetic and enzymatic mechanisms governing adaptation to the humic-rich ecological niche formed during plant degradation, further defining the critical role such fungi contribute to soil structure and carbon sequestration in terrestrial ecosystems. Genome sequence will expedite mushroom breeding for improved agronomic characteristics.
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Urbanová M, Kopecký J, Valášková V, Ságová-Marečková M, Elhottová D, Kyselková M, Moënne-Loccoz Y, Baldrian P. Development of bacterial community during spontaneous succession on spoil heaps after brown coal mining. FEMS Microbiol Ecol 2011; 78:59-69. [DOI: 10.1111/j.1574-6941.2011.01164.x] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022] Open
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Snajdr J, Dobiášová P, Větrovský T, Valášková V, Alawi A, Boddy L, Baldrian P. Saprotrophic basidiomycete mycelia and their interspecific interactions affect the spatial distribution of extracellular enzymes in soil. FEMS Microbiol Ecol 2011; 78:80-90. [PMID: 21539585 DOI: 10.1111/j.1574-6941.2011.01123.x] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022] Open
Abstract
Saprotrophic cord-forming basidiomycetes are important decomposers of lignocellulosic substrates in soil. The production of extracellular hydrolytic enzymes was studied during the growth of two saprotrophic basidiomycetes, Hypholoma fasciculare and Phanerochaete velutina, across the surface of nonsterile soil microcosms, along with the effects of these basidiomycetes on fungi and bacteria within the soil. Higher activities of α-glucosidase, β-glucosidase, cellobiohydrolase, β-xylosidase, phosphomonoesterase and phosphodiesterase, but not of arylsulphatase, were recorded beneath the mycelia. Despite the fact that H. fasciculare, with exploitative hyphal growth, produced much denser hyphal cover on the soil surface than P. velutina, with explorative growth, both fungi produced similar amounts of extracellular enzymes. In the areas where the mycelia of H. fasciculare and P. velutina interacted, the activities of N-acetylglucosaminidase, α-glucosidase and phosphomonoesterase, the enzymes potentially involved in hyphal cell wall damage, and the utilization of compounds released from damaged hyphae of interacting fungi, were particularly increased. No significant differences in fungal biomass were observed between basidiomycete-colonized and noncolonized soil, but bacterial biomass was reduced in soil with H. fasciculare. The increases in the activities of β-xylosidase, β-glucosidase, phosphomonoesterase and cellobiohydrolase with increasing fungal:bacterial biomass ratio indicate the positive effects of fungal enzymes on nutrient release and bacterial abundance, which is reflected in the positive correlation of bacterial and fungal biomass content.
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Affiliation(s)
- Jaroslav Snajdr
- Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, Prague, Czech Republic
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Šnajdr J, Cajthaml T, Valášková V, Merhautová V, Petránková M, Spetz P, Leppänen K, Baldrian P. Transformation of Quercus petraea litter: successive changes in litter chemistry are reflected in differential enzyme activity and changes in the microbial community composition. FEMS Microbiol Ecol 2010; 75:291-303. [DOI: 10.1111/j.1574-6941.2010.00999.x] [Citation(s) in RCA: 168] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022] Open
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Ecology of coarse wood decomposition by the saprotrophic fungus Fomes fomentarius. Biodegradation 2010; 22:709-18. [DOI: 10.1007/s10532-010-9390-8] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2010] [Accepted: 07/14/2010] [Indexed: 11/27/2022]
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Baldrian P. Ectomycorrhizal fungi and their enzymes in soils: is there enough evidence for their role as facultative soil saprotrophs? Oecologia 2009; 161:657-60. [PMID: 19685081 DOI: 10.1007/s00442-009-1433-7] [Citation(s) in RCA: 95] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2009] [Accepted: 07/28/2009] [Indexed: 10/20/2022]
Abstract
Although ectomycorrhizal (ECM) fungi are generally regarded as dependent upon the supply of carbon from their plant hosts, some recent papers have postulated a role for these fungi in the saprotrophic acquisition of carbon from soil. This theory was mainly based on the increase in enzymatic activity during periods of low photosynthate supply from tree hosts and emergence of the theory has led to a question about the overall influence of saprotrophy by ECM fungi on soil carbon turnover. However, I argue here that there is still not enough evidence to confirm this proposed function. My argument is based on inference from several lines of observation and concern over several aspects of the past studies. First, ECM fungi mainly inhabit deeper soil horizons, in which the availability of carbon compounds with positive energetic value is low. Second, the ability of ECM fungi to produce ligninolytic enzymes and cellulases is much weaker than that of saprotrophic basidiomycetes. This is most apparent in the low copy abundance of corresponding genes in the sequenced genomes of ECM species Laccaria bicolor and Amanita bisporigenes compared to the saprotrophic species Galerina marginata. I offer alternative hypotheses to explain the past observations of increased enzyme activity during starvation periods. These include, the induction of autolytic processes in ECM fungal mycelia or an attack on the host tissues to support escape from a dying root and to allow for a search for new hosts.
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Affiliation(s)
- Petr Baldrian
- Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Vídenská 1083, 14220 Praha 4, Czech Republic.
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Phylogenetic composition and properties of bacteria coexisting with the fungus Hypholoma fasciculare in decaying wood. ISME JOURNAL 2009; 3:1218-21. [DOI: 10.1038/ismej.2009.64] [Citation(s) in RCA: 91] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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Tomsovský M, Popelárová P, Baldrian P. Production and regulation of lignocellulose-degrading enzymes of Poria-like wood-inhabiting basidiomycetes. Folia Microbiol (Praha) 2009; 54:74-80. [PMID: 19330548 DOI: 10.1007/s12223-009-0011-z] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/29/2008] [Revised: 10/15/2008] [Indexed: 10/21/2022]
Abstract
The wood-decomposing fungal species Antrodia macra, A. pulvinascens, Ceriporiopsis aneirina, C. resinascens and Dichomitus albidofuscus were determined for production of laccase (LAC), Mn peroxidase (MnP), lignin peroxidase (LiP), endo-l,4-P-beta-glucanase, endo-l,4-beta-xylanase, cellobiohydrolase, 1,4-beta-glucosidase and 1,4-beta-xylosidase. The results confirmed the brown-rot mode of Antrodia spp. which did not produce the activity of LAC and MnP. The remaining species performed detectable activity of both enzymes while no strain produced LiP. Significant inhibition of LAC production by high nitrogen was found in all white-rot species while only MnP of D. albidofuscus was regulated in the same way. The endoglucanase and endoxylanase activities of white-rotting species were inhibited by glucose in the medium while those of Antrodia spp. were not influenced by glucose concentration. The regulation of enzyme activity and bio-mass production can vary even within a single fungal genus.
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Affiliation(s)
- M Tomsovský
- Mendel University of Agriculture and Forestry in Brno, Czech Republic.
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