1
|
Hu X, Wang S, Feng R, Hu K. Natural organic small molecules promote the aging of plastic wastes and refractory carbon decomposition in water. J Hazard Mater 2024; 469:134043. [PMID: 38492386 DOI: 10.1016/j.jhazmat.2024.134043] [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] [Subscribe] [Scholar Register] [Received: 01/20/2024] [Revised: 03/05/2024] [Accepted: 03/13/2024] [Indexed: 03/18/2024]
Abstract
Microplastics and nanoplastics are ubiquitous in rivers and undergo environmental aging. However, the molecular mechanisms of plastic aging and the in-depth effects of aging on ecological functions remain unclear in waters. The synergies of microplastics and nanoplastics (polystyrene as an example) with natural organic small molecules (e.g., natural hyaluronic acid and vitamin C related to biological tissue decomposition) are the key to producing radicals (•OH and •C). The radicals promote the formation of bubbles on plastic surfaces and generate derivatives of plastics such as monomer and dimer styrene. Nanoplastics are easier to age than microplastics. Pristine plastics inhibit the microbial Shannon diversity index and evenness, but the opposite results are observed for aging plastics. Pristine plastics curb pectin decomposition (an indicator of plant-originated refractory carbon), but aging plastics promote pectin decomposition. Microplastics and nanoplastics undergoing aging processes enhance the carbon biogeochemical cycle. For example, the increased carbohydrate active enzyme diversity, especially the related glycoside hydrolase and functional species Pseudomonas and Clostridium, contributes to refractory carbon decomposition. Different from the well-studied toxicity and aging of plastic pollutants, this study connects plastic pollutants with biological tissue decomposition, biodiversity and climate change together in rivers.
Collapse
Affiliation(s)
- Xiangang Hu
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education)/Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China.
| | - Shuting Wang
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education)/Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China
| | - Ruihong Feng
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education)/Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China
| | - Kai Hu
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education)/Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China
| |
Collapse
|
2
|
Mahmood S, Fahad Z, Bolou-Bi EB, King K, Köhler SJ, Bishop K, Ekblad A, Finlay RD. Ectomycorrhizal fungi integrate nitrogen mobilisation and mineral weathering in boreal forest soil. New Phytol 2024; 242:1545-1560. [PMID: 37697631 DOI: 10.1111/nph.19260] [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] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/09/2023] [Accepted: 08/24/2023] [Indexed: 09/13/2023]
Abstract
Tree growth in boreal forests is driven by ectomycorrhizal fungal mobilisation of organic nitrogen and mineral nutrients in soils with discrete organic and mineral horizons. However, there are no studies of how ectomycorrhizal mineral weathering and organic nitrogen mobilisation processes are integrated across the soil profile. We studied effects of organic matter (OM) availability on ectomycorrhizal functioning by altering the proportions of natural organic and mineral soil in reconstructed podzol profiles containing Pinus sylvestris plants, using 13CO2 pulse labelling, patterns of naturally occurring stable isotopes (26Mg and 15N) and high-throughput DNA sequencing of fungal amplicons. Reduction in OM resulted in nitrogen limitation of plant growth and decreased allocation of photosynthetically derived carbon and mycelial growth in mineral horizons. Fractionation patterns of 26Mg indicated that magnesium mobilisation and uptake occurred primarily in the deeper mineral horizon and was driven by carbon allocation to ectomycorrhizal mycelium. In this horizon, relative abundance of ectomycorrhizal fungi, carbon allocation and base cation mobilisation all increased with increased OM availability. Allocation of carbon through ectomycorrhizal fungi integrates organic nitrogen mobilisation and mineral weathering across soil horizons, improving the efficiency of plant nutrient acquisition. Our findings have fundamental implications for sustainable forest management and belowground carbon sequestration.
Collapse
Affiliation(s)
- Shahid Mahmood
- Department of Forest Mycology and Plant Pathology, Uppsala BioCenter, Swedish University of Agricultural Sciences, Box 7026, SE-750 07, Uppsala, Sweden
| | - Zaenab Fahad
- Department of Forest Mycology and Plant Pathology, Uppsala BioCenter, Swedish University of Agricultural Sciences, Box 7026, SE-750 07, Uppsala, Sweden
| | - Emile B Bolou-Bi
- UFR des Sciences de la Terre et des Ressources Minières, Département des Sciences du sol, Université Felix Houphouët-Boigny, 22 BP 582, Abidjan, Côte d'Ivoire
| | - Katharine King
- Department of Forest Mycology and Plant Pathology, Uppsala BioCenter, Swedish University of Agricultural Sciences, Box 7026, SE-750 07, Uppsala, Sweden
| | - Stephan J Köhler
- Department of Aquatic Sciences and Assessment, Soil-Water-Environment Center, Swedish University of Agricultural Sciences, Box 7050, SE-750 07, Uppsala, Sweden
| | - Kevin Bishop
- Department of Aquatic Sciences and Assessment, Soil-Water-Environment Center, Swedish University of Agricultural Sciences, Box 7050, SE-750 07, Uppsala, Sweden
| | - Alf Ekblad
- School of Science and Technology, Örebro University, SE-701 82, Örebro, Sweden
| | - Roger D Finlay
- Department of Forest Mycology and Plant Pathology, Uppsala BioCenter, Swedish University of Agricultural Sciences, Box 7026, SE-750 07, Uppsala, Sweden
| |
Collapse
|
3
|
Shaghaleh H, Zhu Y, Shi X, Alhaj Hamoud Y, Ma C. Co-Effects of Nitrogen Fertilizer and Straw-Decomposing Microbial Inoculant on Decomposition and Transformation of Field Composted Wheat Straw. Life (Basel) 2023; 13:1993. [PMID: 37895375 PMCID: PMC10608237 DOI: 10.3390/life13101993] [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] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2023] [Revised: 09/24/2023] [Accepted: 09/27/2023] [Indexed: 10/29/2023] Open
Abstract
Although straw is an abundant and useful agricultural byproduct, it, however, exhibits hardly any decomposition and transformation. Despite the successful application of chemical and biological substrates for accelerating straw decomposition, the co-effects and mechanisms involved are still unknown. Herein, we performed a 120 day field trial to examine the co-effects of a nitrogen fertilizer (N) and a straw-decomposing microbial inoculant (SDMI) on the straw mass, nutrient release, and the straw chemical structure of composted wheat straw in the Chaohu Lake area, East China. For this purpose, four treatments were selected with straw: S (straw only), NS (N + straw), MS (SDMI + straw), and NMS (N + SDMI + straw). Our results indicated that NMS caused a higher straw decomposition rate than S, NS, and MS (p < 0.05) after 120 days of composting. The N, P, and K discharge rates in treating with NMS were higher than other the treatments at 120 days. The A/OA ratios of the straw residues were gradually increased during the composting, but the treatment of NMS and MS was lower than the CK at the latter stage. The RDA showed that the decomposition rate, nutrient release, and the chemical structure change in the straw were cumulative, while respiration was strongly correlated with lignin peroxidase, manganese peroxidase, and neutral xylanase. In conclusion, nitrogen fertilizer or straw-decomposing microbial inoculant application can improve the decomposition rate and nutrient release with oxidase activity intensified. However, the co-application of nitrogen fertilizer and a straw-decomposing microbial inoculant promoted straw decomposition and enzyme activity better than a single application and showed a lower decomposition degree, which means more potential for further decomposing after 120 days.
Collapse
Affiliation(s)
- Hiba Shaghaleh
- Anhui Province Key Laboratory of Farmland Ecological Conservation and Pollution Prevention, Research Centre of Phosphorus Efficient Utilization and Water Environment Protection along the Yangtze River Economic Belt, College of Resources and Environment, Anhui Agricultural University, Hefei 230036, China; (H.S.)
- College of Environment, Hohai University, Nanjing 210098, China
| | - Yuanpeng Zhu
- Anhui Province Key Laboratory of Farmland Ecological Conservation and Pollution Prevention, Research Centre of Phosphorus Efficient Utilization and Water Environment Protection along the Yangtze River Economic Belt, College of Resources and Environment, Anhui Agricultural University, Hefei 230036, China; (H.S.)
- Key Laboratory of Water Cycle and Related Land Surface Processes, Institute of Geographic Sciences and Natural Resource Research, Chinese Academy of Sciences, Beijing 100101, China
| | - Xinyi Shi
- Anhui Province Key Laboratory of Farmland Ecological Conservation and Pollution Prevention, Research Centre of Phosphorus Efficient Utilization and Water Environment Protection along the Yangtze River Economic Belt, College of Resources and Environment, Anhui Agricultural University, Hefei 230036, China; (H.S.)
| | - Yousef Alhaj Hamoud
- College of Hydrology and Water Resources, Hohai University, Nanjing 210098, China
| | - Chao Ma
- Anhui Province Key Laboratory of Farmland Ecological Conservation and Pollution Prevention, Research Centre of Phosphorus Efficient Utilization and Water Environment Protection along the Yangtze River Economic Belt, College of Resources and Environment, Anhui Agricultural University, Hefei 230036, China; (H.S.)
| |
Collapse
|
4
|
Chen Z, Kumar A, Brookes PC, Kuzyakov Y, Luo Y, Xu J. Three source-partitioning of CO 2 fluxes based on a dual-isotope approach to investigate interactions between soil organic carbon, glucose and straw. Sci Total Environ 2022; 811:152163. [PMID: 34875335 DOI: 10.1016/j.scitotenv.2021.152163] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [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: 05/05/2021] [Revised: 11/23/2021] [Accepted: 11/29/2021] [Indexed: 06/13/2023]
Abstract
Inputs of available organic materials into soil alter the decomposition of soil organic matter (SOM), a process called priming effect. Organic carbon (C) inputs in terrestrial ecosystems are common from various sources (e.g. rhizodeposits, plant residues, microbial necromass) simultaneously, but their interactions as well as mutual effects on SOM decomposition are unknown because multisource partitioning of pools and fluxes was not available. A dual-isotope approach (identical materials except for straw being possessed two 13C abundances) was adopted to partition total CO2 emission from three C sources: SOM, glucose and straw. Cumulative CO2 efflux was quantified into straw-derived (558 μg C g-1), glucose-derived (480 μg C g-1) and SOM-derived (58 μg C g-1) CO2 during the first 7 days of incubation. Glucose or straw addition induced positive SOM priming, whereas glucose combined with straw resulted in higher SOC loss than that induced by single addition of glucose or straw after day 7. The Spearman's correlation showed that the interactions between glucose and straw shifted from increased CO2 evolved during their intensive decomposition (days 1 to 3) to mutual constraint on mineralization during the late stage (days 5 to 7). This study provides evidences for the suitability of the dual-isotope approach to partition multiple sources of CO2 fluxes and C pools, and evaluates their individual or mutual contributions to SOM priming, thus, implicating C sequestration in terrestrial ecosystems.
Collapse
Affiliation(s)
- Zhiyi Chen
- Institute of Soil and Water Resources and Environmental Science, Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou 310058, China
| | - Amit Kumar
- Chair of Ecosystem Functioning and Services, Institute of Ecology, Leuphana University of Lüneburg, Universitätsallee 1, 21335 Lüneburg, Germany
| | - Philip C Brookes
- Institute of Soil and Water Resources and Environmental Science, Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou 310058, China
| | - Yakov Kuzyakov
- Department of Soil Science of Temperate Ecosystems, Department of Agricultural Soil Science, University of Goettingen, 37077 Goettingen, Germany; Agro-Technological Institute, RUDN University, 117198 Moscow, Russia
| | - Yu Luo
- Institute of Soil and Water Resources and Environmental Science, Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou 310058, China.
| | - Jianming Xu
- Institute of Soil and Water Resources and Environmental Science, Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou 310058, China
| |
Collapse
|
5
|
Schröder P, Mench M, Povilaitis V, Rineau F, Rutkowska B, Schloter M, Szulc W, Žydelis R, Loit E. Relaunch cropping on marginal soils by incorporating amendments and beneficial trace elements in an interdisciplinary approach. Sci Total Environ 2022; 803:149844. [PMID: 34525739 DOI: 10.1016/j.scitotenv.2021.149844] [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: 05/27/2021] [Revised: 08/16/2021] [Accepted: 08/18/2021] [Indexed: 06/13/2023]
Abstract
In the EU and world-wide, agriculture is in transition. Whilst we just converted conventional farming imprinted by the post-war food demand and heavy agrochemical usage into integrated and sustainable farming with optimized production, we now have to focus on even smarter agricultural management. Enhanced nutrient efficiency and resistance to pests/pathogens combined with a greener footprint will be crucial for future sustainable farming and its wider environment. Future land use must embrace efficient production and utilization of biomass for improved economic, environmental, and social outcomes, as subsumed under the EU Green Deal, including also sites that have so far been considered as marginal and excluded from production. Another frontier is to supply high-quality food and feed to increase the nutrient density of staple crops. In diets of over two-thirds of the world's population, more than one micronutrient (Fe, Zn, I or Se) is lacking. To improve nutritious values of crops, it will be necessary to combine integrated, systems-based approaches of land management with sustainable redevelopment of agriculture, including central ecosystem services, on so far neglected sites: neglected grassland, set aside land, and marginal lands, paying attention to their connectivity with natural areas. Here we need new integrative approaches which allow the application of different instruments to provide us not only with biomass of sufficient quality and quantity in a site specific manner, but also to improve soil ecological services, e.g. soil C sequestration, water quality, habitat and soil resistance to erosion, while keeping fertilization as low as possible. Such instruments may include the application of different forms of high carbon amendments, the application of macro- and microelements to improve crop performance and quality as well as a targeted manipulation of the soil microbiome. Under certain caveats, the potential of such sites can be unlocked by innovative production systems, ready for the sustainable production of crops enriched in micronutrients and providing services within a circular economy.
Collapse
Affiliation(s)
- Peter Schröder
- Helmholtz Zentrum München, German Research Center for Environmental Health GmbH, Research Unit for Comparative Microiome Analysis, D-85764 Neuherberg, Germany.
| | - Michel Mench
- Univ. Bordeaux, INRAE, BIOGECO, UMR 1202, F-33615 Pessac, France
| | - Virmantas Povilaitis
- Lithuanian Research Centre for Agriculture and Forestry, Akademija LT-58344, Kedainiai distr. Lithuania
| | - Francois Rineau
- Hasselt University, Agoralaan Gebouw D, B-3590 Diepenbeek, Belgium
| | - Beata Rutkowska
- Warsaw University of Life Sciences - SGGW, 02-787 Warsaw, Poland
| | - Michael Schloter
- Helmholtz Zentrum München, German Research Center for Environmental Health GmbH, Research Unit for Comparative Microiome Analysis, D-85764 Neuherberg, Germany
| | - Wieslaw Szulc
- Warsaw University of Life Sciences - SGGW, 02-787 Warsaw, Poland
| | - Renaldas Žydelis
- Lithuanian Research Centre for Agriculture and Forestry, Akademija LT-58344, Kedainiai distr. Lithuania
| | - Evelin Loit
- Estonian University of Life Sciences, Chair of Field Crops and Plant Biology, 51006 Tartu, Estonia.
| |
Collapse
|
6
|
Varsadiya M, Urich T, Hugelius G, Bárta J. Fungi in Permafrost-Affected Soils of the Canadian Arctic: Horizon- and Site-Specific Keystone Taxa Revealed by Co-Occurrence Network. Microorganisms 2021; 9:1943. [PMID: 34576837 DOI: 10.3390/microorganisms9091943] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2021] [Revised: 09/03/2021] [Accepted: 09/09/2021] [Indexed: 01/16/2023] Open
Abstract
Permafrost-affected soil stores a significant amount of organic carbon. Identifying the biological constraints of soil organic matter transformation, e.g., the interaction of major soil microbial soil organic matter decomposers, is crucial for predicting carbon vulnerability in permafrost-affected soil. Fungi are important players in the decomposition of soil organic matter and often interact in various mutualistic relationships during this process. We investigated four different soil horizon types (including specific horizons of cryoturbated soil organic matter (cryoOM)) across different types of permafrost-affected soil in the Western Canadian Arctic, determined the composition of fungal communities by sequencing (Illumina MPS) the fungal internal transcribed spacer region, assigned fungal lifestyles, and by determining the co-occurrence of fungal network properties, identified the topological role of keystone fungal taxa. Compositional analysis revealed a significantly higher relative proportion of the litter saprotroph Lachnum and root-associated saprotroph Phialocephala in the topsoil and the ectomycorrhizal close-contact exploring Russula in cryoOM, whereas Sites 1 and 2 had a significantly higher mean proportion of plant pathogens and lichenized trophic modes. Co-occurrence network analysis revealed the lowest modularity and average path length, and highest clustering coefficient in cryoOM, which suggested a lower network resistance to environmental perturbation. Zi-Pi plot analysis suggested that some keystone taxa changed their role from generalist to specialist, depending on the specific horizon concerned, Cladophialophora in topsoil, saprotrophic Mortierella in cryoOM, and Penicillium in subsoil were classified as generalists for the respective horizons but specialists elsewhere. The litter saprotrophic taxon Cadophora finlandica played a role as a generalist in Site 1 and specialist in the rest of the sites. Overall, these results suggested that fungal communities within cryoOM were more susceptible to environmental change and some taxa may shift their role, which may lead to changes in carbon storage in permafrost-affected soil.
Collapse
|
7
|
Hage H, Rosso MN. Evolution of Fungal Carbohydrate-Active Enzyme Portfolios and Adaptation to Plant Cell-Wall Polymers. J Fungi (Basel) 2021; 7:185. [PMID: 33807546 DOI: 10.3390/jof7030185] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2021] [Revised: 02/25/2021] [Accepted: 02/25/2021] [Indexed: 12/21/2022] Open
Abstract
The postindustrial era is currently facing two ecological challenges. First, the rise in global temperature, mostly caused by the accumulation of carbon dioxide (CO2) in the atmosphere, and second, the inability of the environment to absorb the waste of human activities. Fungi are valuable levers for both a reduction in CO2 emissions, and the improvement of a circular economy with the optimized valorization of plant waste and biomass. Soil fungi may promote plant growth and thereby increase CO2 assimilation via photosynthesis or, conversely, they may prompt the decomposition of dead organic matter, and thereby contribute to CO2 emissions. The strategies that fungi use to cope with plant-cell-wall polymers and access the saccharides that they use as a carbon source largely rely on the secretion of carbohydrate-active enzymes (CAZymes). In the past few years, comparative genomics and phylogenomics coupled with the functional characterization of CAZymes significantly improved the understanding of their evolution in fungal genomes, providing a framework for the design of nature-inspired enzymatic catalysts. Here, we provide an overview of the diversity of CAZyme enzymatic systems employed by fungi that exhibit different substrate preferences, different ecologies, or belong to different taxonomical groups for lignocellulose degradation.
Collapse
|
8
|
Marañón-Jiménez S, Radujković D, Verbruggen E, Grau O, Cuntz M, Peñuelas J, Richter A, Schrumpf M, Rebmann C. Shifts in the Abundances of Saprotrophic and Ectomycorrhizal Fungi With Altered Leaf Litter Inputs. Front Plant Sci 2021; 12:682142. [PMID: 34367207 PMCID: PMC8336600 DOI: 10.3389/fpls.2021.682142] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/17/2021] [Accepted: 06/22/2021] [Indexed: 05/15/2023]
Abstract
Ectomycorrhizal (EcM) and saprotrophic fungi interact in the breakdown of organic matter, but the mechanisms underlying the EcM role on organic matter decomposition are not totally clear. We hypothesized that the ecological relations between EcM and saprotroph fungi are modulated by resources availability and accessibility, determining decomposition rates. We manipulated the amount of leaf litter inputs (No-Litter, Control Litter, Doubled Litter) on Trenched (root exclusion) and Non-Trenched plots (with roots) in a temperate deciduous forest of EcM-associated trees. Resultant shifts in soil fungal communities were determined by phospholipid fatty acids and DNA sequencing after 3 years, and CO2 fluxes were measured throughout this period. Different levels of leaf litter inputs generated a gradient of organic substrate availability and accessibility, altering the composition and ecological relations between EcM and saprotroph fungal communities. EcM fungi dominated at low levels of fresh organic substrates and lower organic matter quality, where short-distances exploration types seem to be better competitors, whereas saprotrophs and longer exploration types of EcM fungi tended to dominate at high levels of leaf litter inputs, where labile organic substrates were easily accessible. We were, however, not able to detect unequivocal signs of competition between these fungal groups for common resources. These results point to the relevance of substrate quality and availability as key factors determining the role of EcM and saprotroph fungi on litter and soil organic matter decay and represent a path forward on the capacity of organic matter decomposition of different exploration types of EcM fungi.
Collapse
Affiliation(s)
- Sara Marañón-Jiménez
- Center for Ecological Research and Forestry Applications (CREAF), Bellaterra, Spain
- Spanish National Research Council (CSIC), Global Ecology Unit CREAF-CSIC-UAB, Bellaterra, Spain
- *Correspondence: Sara Marañón-Jiménez
| | - Dajana Radujković
- Centre of Excellence Plant and Ecosystems (PLECO), Department of Biology, University of Antwerp, Antwerp, Belgium
| | - Erik Verbruggen
- Centre of Excellence Plant and Ecosystems (PLECO), Department of Biology, University of Antwerp, Antwerp, Belgium
| | - Oriol Grau
- Center for Ecological Research and Forestry Applications (CREAF), Bellaterra, Spain
- Spanish National Research Council (CSIC), Global Ecology Unit CREAF-CSIC-UAB, Bellaterra, Spain
- French Agricultural Research Centre for International Development (CIRAD), Joint Research Unit Ecology of Guianan Forests-UMR EcoFoG (AgroParisTech, CNRS, INRA, University of Antilles, University of Guyane), Kourou, French Guiana
| | - Matthias Cuntz
- Université de Lorraine, French National Institute of Agricultural Research, AgroParisTech, UMR 1434 Silva, Nancy, France
| | - Josep Peñuelas
- Center for Ecological Research and Forestry Applications (CREAF), Bellaterra, Spain
- Spanish National Research Council (CSIC), Global Ecology Unit CREAF-CSIC-UAB, Bellaterra, Spain
| | - Andreas Richter
- Department of Microbiology and Ecosystem Science, University of Vienna, Wien, Austria
| | - Marion Schrumpf
- Department for Biogeochemical Processes, Max Planck Institute for Biogeochemistry, Jena, Germany
| | - Corinna Rebmann
- UFZ—Helmholtz Centre for Environmental Research, Department of Computational Hydrosystems, Leipzig, Germany
| |
Collapse
|
9
|
Adamo M, Voyron S, Chialva M, Marmeisse R, Girlanda M. Metabarcoding on both environmental DNA and RNA highlights differences between fungal communities sampled in different habitats. PLoS One 2020; 15:e0244682. [PMID: 33378355 DOI: 10.1371/journal.pone.0244682] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2020] [Accepted: 12/14/2020] [Indexed: 12/14/2022] Open
Abstract
In recent years, metabarcoding has become a key tool to describe microbial communities from natural and artificial environments. Thanks to its high throughput nature, metabarcoding efficiently explores microbial biodiversity under different conditions. It can be performed on environmental (e)DNA to describe so-called total microbial community, or from environmental (e)RNA to describe active microbial community. As opposed to total microbial communities, active ones exclude dead or dormant organisms. For what concerns Fungi, which are mostly filamentous microorganisms, the relationship between DNA-based (total) and RNA-based (active) communities is unclear. In the present study, we evaluated the consequences of performing metabarcoding on both soil and wood-extracted eDNA and eRNA to delineate molecular operational taxonomic units (MOTUs) and differentiate fungal communities according to the environment they originate from. DNA and RNA-based communities differed not only in their taxonomic composition, but also in the relative abundances of several functional guilds. From a taxonomic perspective, we showed that several higher taxa are globally more represented in either “active” or “total” microbial communities. We also observed that delineation of MOTUs based on their co-occurrence among DNA and RNA sequences highlighted differences between the studied habitats that were overlooked when all MOTUs were considered, including those identified exclusively by eDNA sequences. We conclude that metabarcoding on eRNA provides original functional information on the specific roles of several taxonomic or functional groups that would not have been revealed using eDNA alone.
Collapse
|
10
|
Miyauchi S, Kiss E, Kuo A, Drula E, Kohler A, Sánchez-García M, Morin E, Andreopoulos B, Barry KW, Bonito G, Buée M, Carver A, Chen C, Cichocki N, Clum A, Culley D, Crous PW, Fauchery L, Girlanda M, Hayes RD, Kéri Z, LaButti K, Lipzen A, Lombard V, Magnuson J, Maillard F, Murat C, Nolan M, Ohm RA, Pangilinan J, Pereira MF, Perotto S, Peter M, Pfister S, Riley R, Sitrit Y, Stielow JB, Szöllősi G, Žifčáková L, Štursová M, Spatafora JW, Tedersoo L, Vaario LM, Yamada A, Yan M, Wang P, Xu J, Bruns T, Baldrian P, Vilgalys R, Dunand C, Henrissat B, Grigoriev IV, Hibbett D, Nagy LG, Martin FM. Large-scale genome sequencing of mycorrhizal fungi provides insights into the early evolution of symbiotic traits. Nat Commun 2020; 11:5125. [PMID: 33046698 DOI: 10.1038/s41467-020-18795-w] [Citation(s) in RCA: 174] [Impact Index Per Article: 43.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2020] [Accepted: 09/16/2020] [Indexed: 12/25/2022] Open
Abstract
Mycorrhizal fungi are mutualists that play crucial roles in nutrient acquisition in terrestrial ecosystems. Mycorrhizal symbioses arose repeatedly across multiple lineages of Mucoromycotina, Ascomycota, and Basidiomycota. Considerable variation exists in the capacity of mycorrhizal fungi to acquire carbon from soil organic matter. Here, we present a combined analysis of 135 fungal genomes from 73 saprotrophic, endophytic and pathogenic species, and 62 mycorrhizal species, including 29 new mycorrhizal genomes. This study samples ecologically dominant fungal guilds for which there were previously no symbiotic genomes available, including ectomycorrhizal Russulales, Thelephorales and Cantharellales. Our analyses show that transitions from saprotrophy to symbiosis involve (1) widespread losses of degrading enzymes acting on lignin and cellulose, (2) co-option of genes present in saprotrophic ancestors to fulfill new symbiotic functions, (3) diversification of novel, lineage-specific symbiosis-induced genes, (4) proliferation of transposable elements and (5) divergent genetic innovations underlying the convergent origins of the ectomycorrhizal guild. Mycorrhizal symbioses have evolved repeatedly in diverse fungal lineages. A large phylogenomic analysis sheds light on genomic changes associated with transitions from saprotrophy to symbiosis, including divergent genetic innovations underlying the convergent origins of the ectomycorrhizal guild.
Collapse
|
11
|
Deckmyn G, Flores O, Mayer M, Domene X, Schnepf A, Kuka K, Van Looy K, Rasse DP, Briones MJ, Barot S, Berg M, Vanguelova E, Ostonen I, Vereecken H, Suz LM, Frey B, Frossard A, Tiunov A, Frouz J, Grebenc T, Öpik M, Javaux M, Uvarov A, Vindušková O, Henning Krogh P, Franklin O, Jiménez J, Curiel Yuste J. KEYLINK: towards a more integrative soil representation for inclusion in ecosystem scale models. I. review and model concept. PeerJ 2020; 8:e9750. [PMID: 32974092 PMCID: PMC7486829 DOI: 10.7717/peerj.9750] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2020] [Accepted: 07/27/2020] [Indexed: 11/20/2022] Open
Abstract
The relatively poor simulation of the below-ground processes is a severe drawback for many ecosystem models, especially when predicting responses to climate change and management. For a meaningful estimation of ecosystem production and the cycling of water, energy, nutrients and carbon, the integration of soil processes and the exchanges at the surface is crucial. It is increasingly recognized that soil biota play an important role in soil organic carbon and nutrient cycling, shaping soil structure and hydrological properties through their activity, and in water and nutrient uptake by plants through mycorrhizal processes. In this article, we review the main soil biological actors (microbiota, fauna and roots) and their effects on soil functioning. We review to what extent they have been included in soil models and propose which of them could be included in ecosystem models. We show that the model representation of the soil food web, the impact of soil ecosystem engineers on soil structure and the related effects on hydrology and soil organic matter (SOM) stabilization are key issues in improving ecosystem-scale soil representation in models. Finally, we describe a new core model concept (KEYLINK) that integrates insights from SOM models, structural models and food web models to simulate the living soil at an ecosystem scale.
Collapse
Affiliation(s)
- Gaby Deckmyn
- Department of Biology, Plants and Ecosystems (PLECO), Universiteit Antwerpen, Antwerpen, Belgium
| | - Omar Flores
- Department of Biology, Plants and Ecosystems (PLECO), Universiteit Antwerpen, Antwerpen, Belgium
- Biogeography and Global Change, National Museum of Natural Sciences-Spanish National Research Council (MNCN-CSIC), Madrid, Spain
| | - Mathias Mayer
- Institute of Forest Ecology, Department of Forest and Soil Sciences, University of Natural Resources and Life Sciences (BOKU), Vienna, Austria
- Biogeochemistry Group, Forest Soils and Biogeochemistry, Swiss Federal Research Institute WSL, Birmensdorf, Switzerland
| | - Xavier Domene
- CREAF, Cerdanyola del Vallès, Spain
- Universitat Autònoma de Barcelona, Cerdanyola del Vallès, Spain
| | - Andrea Schnepf
- Agrosphere Institute, IBG, Forschungszentrum Jülich GmbH, Jülich, Germany
| | - Katrin Kuka
- Institute for Crop and Soil Science, Julius Kühn-Institut (JKI), Braunschwei, Germany
| | - Kris Van Looy
- OVAM, Flemish Institute for Materials and Soils, Mechelen, Belgium
| | - Daniel P. Rasse
- Department of Biogeochemistry and Soil Quality, Norwegian Institute of Bioeconomy Research (NIBIO), Aas, Norway
| | - Maria J.I. Briones
- Departamento de Ecología y Biología Animal, Universidad de Vigo, Vigo, Spain
| | - Sébastien Barot
- Institute of Ecology and Environmental Sciences, IRD, UPEC, CNRS, INRA, Sorbonne Université, Paris, France
| | - Matty Berg
- Department of Ecological Science, Vrije Universiteit Amsterdam, Amsterdam, Netherlands
- Groningen Institute for Evolutionary Life Sciences, University of Groningen, Groningen, Netherlands
| | | | - Ivika Ostonen
- Institute of Ecology and Earth Sciences, University of Tartu, Tartu, Estonia
| | - Harry Vereecken
- Agrosphere Institute, IBG, Forschungszentrum Jülich GmbH, Jülich, Germany
| | - Laura M. Suz
- Comparative Plant and Fungal Biology, Royal Botanic Gardens, Kew, London, UK
| | - Beat Frey
- Forest Soils and Biogeochemistry, Swiss Federal Research Institute WSL, Birmensdorf, Switzerland
| | - Aline Frossard
- Forest Soils and Biogeochemistry, Swiss Federal Research Institute WSL, Birmensdorf, Switzerland
| | - Alexei Tiunov
- A.N. Severtsov Institute of Ecology and Evolution RAS, Moscow, Russia
| | - Jan Frouz
- Institute for Environmental Studies, Charles University, Prague, Czech Republic
| | - Tine Grebenc
- Slovenian Forestry Institute, Ljubljana, Slovenia
| | - Maarja Öpik
- Institute of Ecology and Earth Sciences, University of Tartu, Tartu, Estonia
| | - Mathieu Javaux
- Agrosphere Institute, IBG, Forschungszentrum Jülich GmbH, Jülich, Germany
- Earth and Life Institute, UCLouvain, Louvain-la-Neuve, Belgium
| | - Alexei Uvarov
- A.N. Severtsov Institute of Ecology and Evolution RAS, Moscow, Russia
| | - Olga Vindušková
- Department of Biology, Plants and Ecosystems (PLECO), Universiteit Antwerpen, Antwerpen, Belgium
| | | | - Oskar Franklin
- Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, Umeå, Sweden
- International Institute for Applied Systems Analysis IIASA, Laxenburg, Austria
| | - Juan Jiménez
- Department of Biodiversity Conservation and Ecosystem Restoration, ARAID/IPE-CSIC, Jaca, Spain
| | - Jorge Curiel Yuste
- BC3-Basque Centre for Climate Change, Scientific Campus of the University of the Basque Country, Bilbao, Bizkaia, Spain
- IKERBASQUE, Basque Foundation for Science, Bilbao, Spain
| |
Collapse
|
12
|
Eaton WD, McGee KM, Alderfer K, Jimenez AR, Hajibabaei M. Increase in abundance and decrease in richness of soil microbes following Hurricane Otto in three primary forest types in the Northern Zone of Costa Rica. PLoS One 2020; 15:e0231187. [PMID: 32730267 PMCID: PMC7392270 DOI: 10.1371/journal.pone.0231187] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2020] [Accepted: 07/07/2020] [Indexed: 11/26/2022] Open
Abstract
Little is known of how hurricane-induced deposition of canopy material onto tropical forest floors influences the soil microbial communities involved in decomposition of these materials. In this study, to identify how soil bacterial and fungal communities might change after a hurricane, and their possible roles in the C and N cycles, soils were collected from five 2000 m2 permanent plots in Lowland, Upland and Riparian primary forests in Costa Rica 3 months before and 7 months after Hurricane Otto damaged the forests. The soil Water, inorganic N and Biomass C increased and total organic C decreased Post-Hurricane, all of which best predicted the changes in the Post-Hurricane soil microbial communities. Post-Hurricane soils from all forest types showed significant changes in community composition of total bacteria, total fungi, and five functional groups of microbes (i.e., degrading/lignin degrading, NH4+-producing, and ammonium oxidizing bacteria, and the complex C degrading/wood rot/lignin degrading and ectomycorrhizal fungi), along with a decrease in richness in genera of all groups. As well, the mean proportion of DNA sequences (MPS) of all five functional groups increased. There were also significant changes in the MPS values of 7 different fungal and 7 different bacterial genera that were part of these functional groups. This is the first evidence that hurricane-induced deposition of canopy material is stimulating changes in the soil microbial communities after the hurricane, involving changes in specific taxonomic and functional group genera, and reduction in the community richness while selecting for dominant genera possibly better suited to process the canopy material. These changes may represent examples of taxonomic switching of functionally redundant microbial genera in response to dramatic changes in resource input. It is possible that differences in these microbial communities and genera may serve as indicators of disturbed and recovering regional soil ecosystems, and should be evaluated in the future.
Collapse
Affiliation(s)
- William D. Eaton
- Biology Department, Pace University, New York, NY, United States of America
- * E-mail:
| | - Katie M. McGee
- Department of Integrative Biology, Biodiversity Institute of Ontario, University of Guelph, Guelph, ON, Canada
| | - Kiley Alderfer
- Biology Department, Pace University, New York, NY, United States of America
| | | | - Mehrdad Hajibabaei
- Department of Integrative Biology, Biodiversity Institute of Ontario, University of Guelph, Guelph, ON, Canada
| |
Collapse
|
13
|
Plett KL, Singan VR, Wang M, Ng V, Grigoriev IV, Martin F, Plett JM, Anderson IC. Inorganic nitrogen availability alters Eucalyptus grandis receptivity to the ectomycorrhizal fungus Pisolithus albus but not symbiotic nitrogen transfer. New Phytol 2020; 226:221-231. [PMID: 31729063 DOI: 10.1111/nph.16322] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [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: 07/16/2019] [Accepted: 11/05/2019] [Indexed: 05/27/2023]
Abstract
Forest trees are able to thrive in nutrient-poor soils in part because they obtain growth-limiting nutrients, especially nitrogen (N), through mutualistic symbiosis with ectomycorrhizal (ECM) fungi. Addition of inorganic N into these soils is known to disrupt this mutualism and reduce the diversity of ECM fungi. Despite its ecological impact, the mechanisms governing the observed effects of elevated inorganic N on mycorrhizal communities remain unknown. We address this by using a compartmentalized in vitro system to independently alter nutrients to each symbiont. Using stable isotopes, we traced the nutrient flux under different nutrient regimes between Eucalyptus grandis and its ectomycorrhizal symbiont, Pisolithus albus. We demonstrate that giving E. grandis independent access to N causes a significant reduction in root colonization by P. albus. Transcriptional analysis suggests that the observed reduction in colonization may be caused, in part, by altered transcription of microbe perception genes and defence genes. We show that delivery of N to host leaves is not increased by host nutrient deficiency but by fungal nutrient availability instead. Overall, this advances our understanding of the effects of N fertilization on ECM fungi and the factors governing nutrient transfer in the E. grandis-P. microcarpus interaction.
Collapse
Affiliation(s)
- Krista L Plett
- Hawkesbury Institute for the Environment, Western Sydney University, Richmond, NSW, 2753, Australia
| | - Vasanth R Singan
- US Department of Energy Joint Genome Institute, Walnut Creek, CA, 94598, USA
| | - Mei Wang
- US Department of Energy Joint Genome Institute, Walnut Creek, CA, 94598, USA
| | - Vivian Ng
- US Department of Energy Joint Genome Institute, Walnut Creek, CA, 94598, USA
| | - Igor V Grigoriev
- US Department of Energy Joint Genome Institute, Walnut Creek, CA, 94598, USA
| | - Francis Martin
- INRA, Interactions Arbres/Microorganismes, Laboratory of Excellence ARBRE, INRA-Nancy, Champenoux, 54280, France
| | - Jonathan M Plett
- Hawkesbury Institute for the Environment, Western Sydney University, Richmond, NSW, 2753, Australia
| | - Ian C Anderson
- Hawkesbury Institute for the Environment, Western Sydney University, Richmond, NSW, 2753, Australia
| |
Collapse
|
14
|
Schneider-Maunoury L, Deveau A, Moreno M, Todesco F, Belmondo S, Murat C, Courty PE, Jąkalski M, Selosse MA. Two ectomycorrhizal truffles, Tuber melanosporum and T. aestivum, endophytically colonise roots of non-ectomycorrhizal plants in natural environments. New Phytol 2020; 225:2542-2556. [PMID: 31733103 DOI: 10.1111/nph.16321] [Citation(s) in RCA: 34] [Impact Index Per Article: 8.5] [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: 09/18/2019] [Accepted: 10/30/2019] [Indexed: 05/27/2023]
Abstract
Serendipitous findings and studies on Tuber species suggest that some ectomycorrhizal fungi, beyond their complex interaction with ectomycorrhizal hosts, also colonise roots of nonectomycorrhizal plants in a loose way called endophytism. Here, we investigate endophytism of T. melanosporum and T. aestivum. We visualised endophytic T. melanosporum hyphae by fluorescent in situ hybridisation on nonectomycorrhizal plants. For the two Tuber species, microsatellite genotyping investigated the endophytic presence of the individuals whose mating produced nearby ascocarps. We quantified the expression of four T. aestivum genes in roots of endophyted, non-ectomycorrhizal plants. Tuber melanosporum hyphae colonised the apoplast of healthy roots, confirming endophytism. Endophytic Tuber melanosporum and T. aestivum contributed to nearby ascocarps, but only as maternal parents (forming the flesh). Paternal individuals (giving only genes found in meiotic spores of ascocarps) were not detected. Gene expression of T. aestivum in non-ectomycorrhizal plants confirmed a living status. Tuber species, and likely other ectomycorrhizal fungi found in nonectomycorrhizal plant roots in this study, can be root endophytes. This is relevant for the ecology (brûlé formation) and commercial production of truffles. Evolutionarily speaking, endophytism may be an ancestral trait in some ectomycorrhizal fungi that evolved from root endophytes.
Collapse
Affiliation(s)
- Laure Schneider-Maunoury
- Institut de Systématique, Évolution, Biodiversité (ISYEB - UMR 7205 - CNRS, MNHN, SU, EPHE), Muséum national d'Histoire naturelle, 57 rue Cuvier, 75005, Paris, France
| | - Aurélie Deveau
- INRA, UMR IAM, Laboratory of Excellence ARBRE, Université de Lorraine, 54000, Nancy, France
| | - Myriam Moreno
- Institut de Systématique, Évolution, Biodiversité (ISYEB - UMR 7205 - CNRS, MNHN, SU, EPHE), Muséum national d'Histoire naturelle, 57 rue Cuvier, 75005, Paris, France
| | - Flora Todesco
- INRA, UMR IAM, Laboratory of Excellence ARBRE, Université de Lorraine, 54000, Nancy, France
| | - Simone Belmondo
- INRA, UMR IAM, Laboratory of Excellence ARBRE, Université de Lorraine, 54000, Nancy, France
| | - Claude Murat
- INRA, UMR IAM, Laboratory of Excellence ARBRE, Université de Lorraine, 54000, Nancy, France
| | - Pierre-Emmanuel Courty
- Agroécologie, AgroSup Dijon, CNRS, INRA, Université de Bourgogne Franche-Comté, 17 rue Sully, 21000, Dijon, France
| | - Marcin Jąkalski
- Faculty of Biology, University of Gdańsk, ul. Wita Stwosza 59, 80-308, Gdańsk, Poland
| | - Marc-André Selosse
- Institut de Systématique, Évolution, Biodiversité (ISYEB - UMR 7205 - CNRS, MNHN, SU, EPHE), Muséum national d'Histoire naturelle, 57 rue Cuvier, 75005, Paris, France
- Faculty of Biology, University of Gdańsk, ul. Wita Stwosza 59, 80-308, Gdańsk, Poland
| |
Collapse
|
15
|
Ruytinx J, Kafle A, Usman M, Coninx L, Zimmermann SD, Garcia K. Micronutrient transport in mycorrhizal symbiosis; zinc steals the show. FUNGAL BIOL REV 2020. [DOI: 10.1016/j.fbr.2019.09.001] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
|
16
|
Stuart EK, Plett KL. Digging Deeper: In Search of the Mechanisms of Carbon and Nitrogen Exchange in Ectomycorrhizal Symbioses. Front Plant Sci 2020; 10:1658. [PMID: 31993064 PMCID: PMC6971170 DOI: 10.3389/fpls.2019.01658] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/26/2019] [Accepted: 11/25/2019] [Indexed: 05/12/2023]
Abstract
Symbiosis with ectomycorrhizal (ECM) fungi is an advantageous partnership for trees in nutrient-limited environments. Ectomycorrhizal fungi colonize the roots of their hosts and improve their access to nutrients, usually nitrogen (N) and, in exchange, trees deliver a significant portion of their photosynthetic carbon (C) to the fungi. This nutrient exchange affects key soil processes and nutrient cycling, as well as plant health, and is therefore central to forest ecosystem functioning. Due to their ecological importance, there is a need to more accurately understand ECM fungal mediated C and N movement within forest ecosystems such that we can better model and predict their role in soil processes both now and under future climate scenarios. There are a number of hurdles that we must overcome, however, before this is achievable such as understanding how the evolutionary history of ECM fungi and their inter- and intra- species variability affect their function. Further, there is currently no generally accepted universal mechanism that appears to govern the flux of nutrients between fungal and plant partners. Here, we consider the current state of knowledge on N acquisition and transport by ECM fungi and how C and N exchange may be related or affected by environmental conditions such as N availability. We emphasize the role that modern genomic analysis, molecular biology techniques and more comprehensive and standardized experimental designs may have in bringing cohesion to the numerous ecological studies in this area and assist us in better understanding this important symbiosis. These approaches will help to build unified models of nutrient exchange and develop diagnostic tools to study these fungi at various scales and environments.
Collapse
Affiliation(s)
| | - Krista L. Plett
- Hawkesbury Institute for the Environment, Western Sydney University, Richmond, NSW, Australia
| |
Collapse
|
17
|
Vanegas J, Muñoz-García A, Pérez-Parra KA, Figueroa-Galvis I, Mestanza O, Polanía J. Effect of salinity on fungal diversity in the rhizosphere of the halophyte Avicennia germinans from a semi-arid mangrove. FUNGAL ECOL 2019. [DOI: 10.1016/j.funeco.2019.07.009] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
|
18
|
Siddiqui H, Sami F, Hayat S. Glucose: Sweet or bitter effects in plants-a review on current and future perspective. Carbohydr Res 2019; 487:107884. [PMID: 31811968 DOI: 10.1016/j.carres.2019.107884] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [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: 08/28/2019] [Revised: 11/28/2019] [Accepted: 11/28/2019] [Indexed: 01/09/2023]
Abstract
Sugars are metabolic substrates playing a part in modulating various processes in plants during different phases of development. Thus, modulating the sugar metabolism can have intense effects on the plant metabolism. Glucose is a soluble sugar, found throughout the plant kingdom. Apart from being a universal carbon source, glucose also operates as a signaling molecule modulating various metabolic processes in plants. From germination to senescence, wide range of processes in plants is regulated by glucose. The effect of glucose is found to be concentration dependent. Photosynthesis and its related attributes, respiration and nitrogen metabolism are influenced by glucose application. Endogenous content of glucose increases upon exposure of plant to various abiotic stresses and also when glucose is supplied exogenously. Glucose accumulation alleviates the damaging effects of stress by enhancing production of antioxidants and compounds similar to that of photosynthetic CO2 fixation which act as an osmoticum by maintaining osmotic pressure inside the cell, pH homeostasis regulator and reduce membrane permeability during stress. Glucose interaction with various phytohormones has also been discussed in this review.
Collapse
Affiliation(s)
- Husna Siddiqui
- Plant Physiology Section, Department of Botany, Faculty of Life Sciences, Aligarh Muslim University, Aligarh, 202002, India.
| | - Fareen Sami
- Plant Physiology Section, Department of Botany, Faculty of Life Sciences, Aligarh Muslim University, Aligarh, 202002, India
| | - Shamsul Hayat
- Plant Physiology Section, Department of Botany, Faculty of Life Sciences, Aligarh Muslim University, Aligarh, 202002, India
| |
Collapse
|
19
|
Abstract
Inhabiting the interface between plant roots and soil, mycorrhizal fungi play a unique but underappreciated role in soil organic matter (SOM) dynamics. Their hyphae provide an efficient mechanism for distributing plant carbon throughout the soil, facilitating its deposition into soil pores and onto mineral surfaces, where it can be protected from microbial attack. Mycorrhizal exudates and dead tissues contribute to the microbial necromass pool now known to play a dominant role in SOM formation and stabilization. While mycorrhizal fungi lack the genetic capacity to act as saprotrophs, they use several strategies to access nutrients locked in SOM and thereby promote its decay, including direct enzymatic breakdown, oxidation via Fenton chemistry, and stimulation of heterotrophic microorganisms through carbon provision to the rhizosphere. An additional mechanism, competition with free-living saprotrophs, potentially suppresses SOM decomposition, leading to its accumulation. How these various nutrient acquisition strategies differentially influence SOM formation, stabilization, and loss is an area of critical research need.
Collapse
Affiliation(s)
- Serita D. Frey
- Department of Natural Resources and the Environment, University of New Hampshire, Durham, New Hampshire 03824, USA
| |
Collapse
|
20
|
Tan, Kan, Su, Liu, Zhang. The Composition and Diversity of Soil Bacterial and Fungal Communities Along an Urban-To-Rural Gradient in South China. Forests 2019; 10:797. [DOI: 10.3390/f10090797] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
Soil microbes are of great significance to driving the biogeochemical cycles and are affected by multiple factors, including urbanization. However, the response of soil microbes to urbanization remains unclear. Therefore, we designed an urban-to-rural gradient experiment to investigate the response of soil microbial composition and diversity to urbanization. Here, we used a high-throughput sequencing method to analyze the biotic and abiotic effects on soil microbial composition and diversity along the urban-to-rural gradient. Our results showed that soil bacterial diversity was the highest in urban areas, followed by suburban areas, and was the lowest in exurbs; however, fungal diversity did not vary significantly among the three areas. Plant traits, i.e., tree richness, shrub richness, the number of tree stems, diameter at breast height of trees, and soil properties, i.e., pH, soil organic carbon, soil exchangeable calcium and magnesium, and soil water content, were only significantly influenced bacterial diversity, but not fungal diversity. The effect of trees and shrubs was higher than that of herbs on microbial composition. Soil organic carbon, pH, soil available nitrogen, soil exchangeable calcium, and magnesium were the major soil factors influencing the soil bacterial and fungal composition. Soil properties had a greater influence on bacterial than on fungal composition at genus level, while plant traits contributed more to fungal than to bacterial composition at genus level. Our study suggests that the urban-to-rural gradient affect the composition and diversity of bacterial community as well as the fungal composition, but not the fungal diversity.
Collapse
|
21
|
Maaroufi NI, Nordin A, Palmqvist K, Hasselquist NJ, Forsmark B, Rosenstock NP, Wallander H, Gundale MJ. Anthropogenic nitrogen enrichment enhances soil carbon accumulation by impacting saprotrophs rather than ectomycorrhizal fungal activity. Glob Chang Biol 2019; 25:2900-2914. [PMID: 31166650 DOI: 10.1111/gcb.14722] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [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: 12/13/2018] [Revised: 05/10/2019] [Accepted: 05/20/2019] [Indexed: 05/26/2023]
Abstract
There is evidence that anthropogenic nitrogen (N) deposition enhances carbon (C) sequestration in boreal forest soils. However, it is unclear how free-living saprotrophs (bacteria and fungi, SAP) and ectomycorrhizal (EM) fungi responses to N addition impact soil C dynamics. Our aim was to investigate how SAP and EM communities are impacted by N enrichment and to estimate whether these changes influence decay of litter and humus. We conducted a long-term experiment in northern Sweden, maintained since 2004, consisting of ambient, low N additions (0, 3, 6, and 12 kg N ha-1 year-1 ) simulating current N deposition rates in the boreal region, as well as a high N addition (50 kg N ha-1 year-1 ). Our data showed that long-term N enrichment impeded mass loss of litter, but not of humus, and only in response to the highest N addition treatment. Furthermore, our data showed that EM fungi reduced the mass of N and P in both substrates during the incubation period compared to when only SAP organisms were present. Low N additions had no effect on microbial community structure, while the high N addition decreased fungal and bacterial biomasses and altered EM fungi and SAP community composition. Actinomycetes were the only bacterial SAP to show increased biomass in response to the highest N addition. These results provide a mechanistic understanding of how anthropogenic N enrichment can influence soil C accumulation rates and suggest that current N deposition rates in the boreal region (≤12 kg N ha-1 year-1 ) are likely to have a minor impact on the soil microbial community and the decomposition of humus and litter.
Collapse
Affiliation(s)
- Nadia I Maaroufi
- Institute of Plant Sciences, University of Bern, Bern, Switzerland
- Department of Forest Ecology and Management, Swedish University of Agriculture Sciences, Umeå, Sweden
- Department of Forest Mycology and Plant Pathology, BioCenter, Swedish University of Agricultural Sciences, Uppsala, Sweden
| | - Annika Nordin
- Department of Forest Genetics and Plant Physiology, Umeå Plant Science Center, Swedish University of Agricultural Sciences, Umeå, Sweden
| | - Kristin Palmqvist
- Department of Ecology and Environmental Science, Umeå University, Umeå, Sweden
| | - Niles J Hasselquist
- Department of Forest Ecology and Management, Swedish University of Agriculture Sciences, Umeå, Sweden
| | - Benjamin Forsmark
- Department of Forest Ecology and Management, Swedish University of Agriculture Sciences, Umeå, Sweden
| | | | - Håkan Wallander
- Department of Microbial Ecology, Lund University, Lund, Sweden
| | - Michael J Gundale
- Department of Forest Ecology and Management, Swedish University of Agriculture Sciences, Umeå, Sweden
| |
Collapse
|
22
|
Zak DR, Pellitier PT, Argiroff W, Castillo B, James TY, Nave LE, Averill C, Beidler KV, Bhatnagar J, Blesh J, Classen AT, Craig M, Fernandez CW, Gundersen P, Johansen R, Koide RT, Lilleskov EA, Lindahl BD, Nadelhoffer KJ, Phillips RP, Tunlid A. Exploring the role of ectomycorrhizal fungi in soil carbon dynamics. New Phytol 2019; 223:33-39. [PMID: 30636276 DOI: 10.1111/nph.15679] [Citation(s) in RCA: 74] [Impact Index Per Article: 14.8] [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: 11/02/2018] [Accepted: 01/07/2019] [Indexed: 05/26/2023]
Abstract
The extent to which ectomycorrhizal (ECM) fungi enable plants to access organic nitrogen (N) bound in soil organic matter (SOM) and transfer this growth-limiting nutrient to their plant host, has important implications for our understanding of plant-fungal interactions, and the cycling and storage of carbon (C) and N in terrestrial ecosystems. Empirical evidence currently supports a range of perspectives, suggesting that ECM vary in their ability to provide their host with N bound in SOM, and that this capacity can both positively and negatively influence soil C storage. To help resolve the multiplicity of observations, we gathered a group of researchers to explore the role of ECM fungi in soil C dynamics, and propose new directions that hold promise to resolve competing hypotheses and contrasting observations. In this Viewpoint, we summarize these deliberations and identify areas of inquiry that hold promise for increasing our understanding of these fundamental and widespread plant symbionts and their role in ecosystem-level biogeochemistry.
Collapse
Affiliation(s)
- Donald R Zak
- School for Environment and Sustainability, University of Michigan, Ann Arbor, MI, 48109, USA
- Department of Ecology & Evolutionary Biology, University of Michigan, Ann Arbor, MI, 48109, USA
| | - Peter T Pellitier
- School for Environment and Sustainability, University of Michigan, Ann Arbor, MI, 48109, USA
| | - WilliamA Argiroff
- School for Environment and Sustainability, University of Michigan, Ann Arbor, MI, 48109, USA
| | - Buck Castillo
- Department of Ecology & Evolutionary Biology, University of Michigan, Ann Arbor, MI, 48109, USA
| | - Timothy Y James
- Department of Ecology & Evolutionary Biology, University of Michigan, Ann Arbor, MI, 48109, USA
| | - Lucas E Nave
- Department of Ecology & Evolutionary Biology, University of Michigan, Ann Arbor, MI, 48109, USA
| | - Colin Averill
- Department of Earth and Environment, Boston University, Boston, MA, 02215, USA
| | - Kaitlyn V Beidler
- Department of Biology, Indiana University, Bloomington, IN, 47405, USA
| | | | - Jennifer Blesh
- School for Environment and Sustainability, University of Michigan, Ann Arbor, MI, 48109, USA
| | - Aimée T Classen
- The Rubenstein School of Environment & Natural Resources, University of Vermont, Burlington, VT, 05405, USA
- The Gund Institute for Environment, University of Vermont, Burlington, VT, 05405, USA
| | - Matthew Craig
- Department of Biology, Indiana University, Bloomington, IN, 47405, USA
| | | | - Per Gundersen
- Department of Geosciences and Natural Resource Management, University of Copenhagen, Copenhagen, DK-1711, Denmark
| | - Renee Johansen
- Los Alamos National Laboratory, Santa Fe, NM, 87545, USA
| | - Roger T Koide
- Department of Biology, Brigham Young University, Provo, UT, 84602, USA
| | - Erik A Lilleskov
- US Forest Service, Northern Research Station, 410 Mac Innes Dr., Houghton, MI, 49931, USA
| | - Björn D Lindahl
- Department of Soil and Environment, Swedish University of Agricultural Sciences, Uppsala, SE-750 07, Sweden
| | - Knute J Nadelhoffer
- Department of Ecology & Evolutionary Biology, University of Michigan, Ann Arbor, MI, 48109, USA
| | | | - Anders Tunlid
- Department of Biology, Microbial Ecology Group, Lund University, Lund, SE-221 00, Sweden
| |
Collapse
|
23
|
Wang T, Tian Z, Tunlid A, Persson P. Influence of Ammonium on Formation of Mineral-Associated Organic Carbon by an Ectomycorrhizal Fungus. Appl Environ Microbiol 2019; 85:e03007-18. [PMID: 30877120 PMCID: PMC6498167 DOI: 10.1128/aem.03007-18] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2018] [Accepted: 03/08/2019] [Indexed: 11/20/2022] Open
Abstract
The interactions between dissolved organic matter (DOM) and mineral particles are critical for the stabilization of soil organic matter (SOM) in terrestrial ecosystems. The processing of DOM by ectomycorrhizal fungi contributes to the formation of mineral-stabilized SOM by two contrasting pathways: the extracellular transformation of DOM (ex vivo pathway) and the secretion of mineral-surface-reactive metabolites (in vivo pathway). In this study, we examined how changes in nitrogen (N) availability affected the formation of mineral-associated carbon (C) from these two pathways. DOM was extracted from forest soils. The processing of this DOM by the ectomycorrhizal fungus Paxillus involutus was examined in laboratory-scale studies with different levels of ammonium. At low levels of ammonium (i.e., under N-limited conditions), the DOM components were slightly oxidized, and fungal C metabolites with iron-reducing activity were secreted. Ammonium amendments decreased the amount of C metabolites, and no additional oxidation of the organic matter was detected. In contrast, the hydrolytic activity and the secretion of N-containing compounds increased, particularly when high levels of ammonium were added. Under these conditions, C, but not N, limited fungal growth. Although the overall production of mineral-associated organic C was not affected by ammonium concentrations, the observed shifts in the activities of the ex vivo and in vivo pathways affected the composition of organic matter adsorbed onto the mineral particles. Such changes will affect the properties of organic matter-mineral associations and, thus, ultimately, the stabilization of SOM.IMPORTANCE Nitrogen (N) availability plays a critical role in the cycling and storage of soil organic matter (SOM). However, large uncertainties remain in predicting the net effect of N addition on soil organic carbon (C) storage due to the complex interactions between organic matter, microbial activity, and mineral particles that determine the formation of stable SOM. Here, we attempted to disentangle the effects of ammonium on these interactions in controlled microcosm experiments including the ectomycorrhizal fungus P.involutus and dissolved organic matter extracted from forest soils. Increased ammonium levels affected the fungal processing of the organic material as well as the secretion of extracellular metabolites. Although ammonium additions did not increase the net production of mineral-adsorbed C, changes in the decomposition and secretion pathways altered the composition of the adsorbed organic matter. These changes may influence the properties of the organic matter-mineral associations and, thus, the stabilization of SOM.
Collapse
Affiliation(s)
- Tao Wang
- Department of Biology, Microbial Ecology Group, Lund University, Lund, Sweden
| | - Zhaomo Tian
- Department of Biology, Microbial Ecology Group, Lund University, Lund, Sweden
- Centre for Environmental and Climate Research, Lund University, Lund, Sweden
| | - Anders Tunlid
- Department of Biology, Microbial Ecology Group, Lund University, Lund, Sweden
| | - Per Persson
- Department of Biology, Microbial Ecology Group, Lund University, Lund, Sweden
- Centre for Environmental and Climate Research, Lund University, Lund, Sweden
| |
Collapse
|
24
|
Kafle A, Cope K, Raths R, Krishna Yakha J, Subramanian S, Bücking H, Garcia K. Harnessing Soil Microbes to Improve Plant Phosphate Efficiency in Cropping Systems. Agronomy 2019; 9:127. [DOI: 10.3390/agronomy9030127] [Citation(s) in RCA: 31] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
Phosphorus is an essential macronutrient required for plant growth and development. It is central to many biological processes, including nucleic acid synthesis, respiration, and enzymatic activity. However, the strong adsorption of phosphorus by minerals in the soil decreases its availability to plants, thus reducing the productivity of agricultural and forestry ecosystems. This has resulted in a complete dependence on non-renewable chemical fertilizers that are environmentally damaging. Alternative strategies must be identified and implemented to help crops acquire phosphorus more sustainably. In this review, we highlight recent advances in our understanding and utilization of soil microbes to both solubilize inorganic phosphate from insoluble forms and allocate it directly to crop plants. Specifically, we focus on arbuscular mycorrhizal fungi, ectomycorrhizal fungi, and phosphate-solubilizing bacteria. Each of these play a major role in natural and agroecosystems, and their use as bioinoculants is an increasing trend in agricultural practices.
Collapse
|
25
|
Nicolás C, Martin-Bertelsen T, Floudas D, Bentzer J, Smits M, Johansson T, Troein C, Persson P, Tunlid A. The soil organic matter decomposition mechanisms in ectomycorrhizal fungi are tuned for liberating soil organic nitrogen. ISME J 2019; 13:977-88. [PMID: 30538275 DOI: 10.1038/s41396-018-0331-6] [Citation(s) in RCA: 62] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/07/2018] [Revised: 08/27/2018] [Accepted: 11/28/2018] [Indexed: 02/08/2023]
Abstract
Many trees form ectomycorrhizal symbiosis with fungi. During symbiosis, the tree roots supply sugar to the fungi in exchange for nitrogen, and this process is critical for the nitrogen and carbon cycles in forest ecosystems. However, the extents to which ectomycorrhizal fungi can liberate nitrogen and modify the soil organic matter and the mechanisms by which they do so remain unclear since they have lost many enzymes for litter decomposition that were present in their free-living, saprotrophic ancestors. Using time-series spectroscopy and transcriptomics, we examined the ability of two ectomycorrhizal fungi from two independently evolved ectomycorrhizal lineages to mobilize soil organic nitrogen. Both species oxidized the organic matter and accessed the organic nitrogen. The expression of those events was controlled by the availability of glucose and inorganic nitrogen. Despite those similarities, the decomposition mechanisms, including the type of genes involved as well as the patterns of their expression, differed markedly between the two species. Our results suggest that in agreement with their diverse evolutionary origins, ectomycorrhizal fungi use different decomposition mechanisms to access organic nitrogen entrapped in soil organic matter. The timing and magnitude of the expression of the decomposition activity can be controlled by the below-ground nitrogen quality and the above-ground carbon supply.
Collapse
|
26
|
Strullu-Derrien C, Selosse MA, Kenrick P, Martin FM. The origin and evolution of mycorrhizal symbioses: from palaeomycology to phylogenomics. New Phytol 2018; 220:1012-1030. [PMID: 29573278 DOI: 10.1111/nph.15076] [Citation(s) in RCA: 120] [Impact Index Per Article: 20.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/15/2017] [Accepted: 01/14/2018] [Indexed: 05/05/2023]
Abstract
Contents Summary 1012 I. Introduction 1013 II. The mycorrhizal symbiosis at the dawn and rise of the land flora 1014 III. From early land plants to early trees: the origin of roots and true mycorrhizas 1016 IV. The diversification of the AM symbiosis 1019 V. The ECM symbiosis 1021 VI. The recently evolved ericoid and orchid mycorrhizas 1023 VII. Limits of paleontological vs genetic approaches and perspectives 1023 Acknowledgements 1025 References 1025 SUMMARY: The ability of fungi to form mycorrhizas with plants is one of the most remarkable and enduring adaptations to life on land. The occurrence of mycorrhizas is now well established in c. 85% of extant plants, yet the geological record of these associations is sparse. Fossils preserved under exceptional conditions provide tantalizing glimpses into the evolutionary history of mycorrhizas, showing the extent of their occurrence and aspects of their evolution in extinct plants. The fossil record has important roles to play in establishing a chronology of when key fungal associations evolved and in understanding their importance in ecosystems through time. Together with calibrated phylogenetic trees, these approaches extend our understanding of when and how groups evolved in the context of major environmental change on a global scale. Phylogenomics furthers this understanding into the evolution of different types of mycorrhizal associations, and genomic studies of both plants and fungi are shedding light on how the complex set of symbiotic traits evolved. Here we present a review of the main phases of the evolution of mycorrhizal interactions from palaeontological, phylogenetic and genomic perspectives, with the aim of highlighting the potential of fossil material and a geological perspective in a cross-disciplinary approach.
Collapse
Affiliation(s)
- Christine Strullu-Derrien
- Department of Earth Sciences, The Natural History Museum, Cromwell Road, London, SW7 5BD, UK
- Interactions Arbres/Microorganismes, Laboratoire d'excellence ARBRE, Centre INRA-Lorraine, Institut national de la recherche agronomique (INRA), Unité Mixte de Recherche 1136 INRA-Université de Lorraine, 54280, Champenoux, France
| | - Marc-André Selosse
- Institut Systématique Evolution Biodiversité (ISYEB), Muséum national d'Histoire naturelle, CNRS, Sorbonne Université, EPHE, 57 rue Cuvier, CP39, 75005, Paris, France
- Department of Plant Taxonomy and Nature Conservation, Faculty of Biology, University of Gdańsk, Wita Stwosza 59, 80-308, Gdansk, Poland
| | - Paul Kenrick
- Department of Earth Sciences, The Natural History Museum, Cromwell Road, London, SW7 5BD, UK
| | - Francis M Martin
- Interactions Arbres/Microorganismes, Laboratoire d'excellence ARBRE, Centre INRA-Lorraine, Institut national de la recherche agronomique (INRA), Unité Mixte de Recherche 1136 INRA-Université de Lorraine, 54280, Champenoux, France
| |
Collapse
|
27
|
Li Y, Chen Z, He JZ, Wang Q, Shen C, Ge Y. Ectomycorrhizal fungi inoculation alleviates simulated acid rain effects on soil ammonia oxidizers and denitrifiers in Masson pine forest. Environ Microbiol 2018; 21:299-313. [PMID: 30370620 DOI: 10.1111/1462-2920.14457] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2018] [Accepted: 10/12/2018] [Indexed: 11/27/2022]
Abstract
Acid rain can cause severe effects on soil biota and nutrient biogeochemical cycles in the forest ecosystem, but how plant-symbiotic ectomycorrhizal fungi will modulate the effects remains unknown. Here, we conducted a full factorial field experiment in a Masson pine forest by simultaneously controlling the acidity of the simulated rain (pH 5.6 vs. pH 3.5) and the ectomycorrhizal fungi Pisolithus tinctorius inoculation (non-inoculation vs. inoculation), to investigate the effects on ammonia oxidizers and denitrifiers. After 10 months, compared with the control (rain pH 5.6, and non-inoculation), simulated acid rain (pH 3.5) reduced soil nutrient content, decreased archaeal amoA gene abundance and inhibited denitrification enzyme activity. Also, simulated acid rain altered the community compositions of all the examined functional genes (archaeal amoA, bacterial amoA, nirK, nirS and nosZ). However, inoculation with ectomycorrhizal fungi under acid rain stress recovered soil nutrient content, archaeal amoA gene abundance and denitrification enzyme activity to levels comparable to the control, suggesting that ectomycorrhizal fungi inoculation ameliorates simulated acid rain effects. Taken together, ectomycorrhizal fungi inoculation - potentially through improving soil substrate availability - could alleviate the deleterious effects of acid rain on nitrogen cycling microbes in forest soils.
Collapse
Affiliation(s)
- Yan Li
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China.,University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Zhan Chen
- Key Laboratory of Forest Ecology and Environment, State Forestry Administration, Institute of Forest Ecology, Environment and Protection, Chinese Academy of Forestry, Beijing, 100091, China
| | - Ji-Zheng He
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China.,University of Chinese Academy of Sciences, Beijing, 100049, China.,Faculty of Veterinary and Agricultural Sciences, The University of Melbourne, Parkville, Victoria, Australia
| | - Qing Wang
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China.,University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Congcong Shen
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China.,University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Yuan Ge
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China.,University of Chinese Academy of Sciences, Beijing, 100049, China
| |
Collapse
|
28
|
Akroume E, Maillard F, Bach C, Hossann C, Brechet C, Angeli N, Zeller B, Saint-André L, Buée M. First evidences that the ectomycorrhizal fungusPaxillus involutusmobilizes nitrogen and carbon from saprotrophic fungus necromass. Environ Microbiol 2018; 21:197-208. [DOI: 10.1111/1462-2920.14440] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2018] [Accepted: 10/05/2018] [Indexed: 11/30/2022]
Affiliation(s)
- Emila Akroume
- INRA, UMR1136 Interactions Arbres-Microorganismes; F-54280, Champenoux France
- Université de Lorraine, UMR1136 Interactions Arbres-Microorganismes; F-54500, Vandœuvre-lès-Nancy France
- INRA UR 1138 Biogéochimie des Ecosystèmes Forestiers, Centre INRA de Nancy; Champenoux France
- Agroparistech, Centre de Nancy; F-54000, Nancy France
| | - François Maillard
- INRA, UMR1136 Interactions Arbres-Microorganismes; F-54280, Champenoux France
- Université de Lorraine, UMR1136 Interactions Arbres-Microorganismes; F-54500, Vandœuvre-lès-Nancy France
| | - Cyrille Bach
- INRA, UMR1136 Interactions Arbres-Microorganismes; F-54280, Champenoux France
- Université de Lorraine, UMR1136 Interactions Arbres-Microorganismes; F-54500, Vandœuvre-lès-Nancy France
| | - Christian Hossann
- INRA UMR1137 Ecologie et Ecophysiologie Forestière, Centre INRA de Nancy; Champenoux France
| | - Claude Brechet
- INRA UMR1137 Ecologie et Ecophysiologie Forestière, Centre INRA de Nancy; Champenoux France
| | - Nicolas Angeli
- INRA UMR1137 Ecologie et Ecophysiologie Forestière, Centre INRA de Nancy; Champenoux France
| | - Bernhard Zeller
- INRA UR 1138 Biogéochimie des Ecosystèmes Forestiers, Centre INRA de Nancy; Champenoux France
| | - Laurent Saint-André
- INRA UR 1138 Biogéochimie des Ecosystèmes Forestiers, Centre INRA de Nancy; Champenoux France
| | - Marc Buée
- INRA, UMR1136 Interactions Arbres-Microorganismes; F-54280, Champenoux France
- Université de Lorraine, UMR1136 Interactions Arbres-Microorganismes; F-54500, Vandœuvre-lès-Nancy France
| |
Collapse
|
29
|
Koide RT, Fernandez CW. The continuing relevance of "older" mycorrhiza literature: insights from the work of John Laker Harley (1911-1990). Mycorrhiza 2018; 28:577-586. [PMID: 30014212 DOI: 10.1007/s00572-018-0854-8] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [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: 05/09/2018] [Accepted: 07/09/2018] [Indexed: 06/08/2023]
Abstract
To new generations of scientists beginning their careers in research, we strongly recommend the practice of reading older literature. To illustrate the value of doing so, we highlight six insights of one of the most influential mycorrhiza researchers of the twentieth century, Jack Harley. These insights concerning mycotrophy, the new niche, the sheath, C cycling, N cycling, and mutualism were published prior to 1975 and so may have escaped the notice of many, but they laid the groundwork for some of the most important research of today.
Collapse
Affiliation(s)
- Roger T Koide
- Department of Biology, Brigham Young University, Provo, UT, 84602, USA.
| | | |
Collapse
|
30
|
Xun W, Yan R, Ren Y, Jin D, Xiong W, Zhang G, Cui Z, Xin X, Zhang R. Grazing-induced microbiome alterations drive soil organic carbon turnover and productivity in meadow steppe. Microbiome 2018; 6:170. [PMID: 30236158 PMCID: PMC6149009 DOI: 10.1186/s40168-018-0544-y] [Citation(s) in RCA: 52] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/29/2018] [Accepted: 08/29/2018] [Indexed: 05/26/2023]
Abstract
BACKGROUND Grazing is a major modulator of biodiversity and productivity in grasslands. However, our understanding of grazing-induced changes in below-ground communities, processes, and soil productivity is limited. Here, using a long-term enclosed grazing meadow steppe, we investigated the impacts of grazing on the soil organic carbon (SOC) turnover, the microbial community composition, resistance and activity under seasonal changes, and the microbial contributions to soil productivity. RESULTS The results demonstrated that grazing had significant impacts on soil microbial communities and ecosystem functions in meadow steppe. The highest microbial α-diversity was observed under light grazing intensity, while the highest β-diversity was observed under moderate grazing intensity. Grazing shifted the microbial composition from fungi dominated to bacteria dominated and from slow growing to fast growing, thereby resulting in a shift from fungi-dominated food webs primarily utilizing recalcitrant SOC to bacteria-dominated food webs mainly utilizing labile SOC. Moreover, the higher fungal recalcitrant-SOC-decomposing activities and bacterial labile-SOC-decomposing activities were observed in fungi- and bacteria-dominated communities, respectively. Notably, the robustness of bacterial community and the stability of bacterial activity were associated with α-diversity, while this was not the case for the robustness of fungal community and its associated activities. Finally, we observed that microbial α-diversity rather than SOC turnover rate can predict soil productivity. CONCLUSIONS Our findings indicate the strong influence of grazing on soil microbial community, SOC turnover, and soil productivity and the important positive role of soil microbial α-diversity in steering the functions of meadow steppe ecosystems.
Collapse
Affiliation(s)
- Weibing Xun
- Jiangsu Provincial Key Lab for Organic Solid Waste Utilization, National Engineering Research Center for Organic-based Fertilizers, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, 210095, China
- Key Laboratory of Microbial Resources Collection and Preservation, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Ruirui Yan
- National Hulunber Grassland Ecosystem Observation and Research Station, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Yi Ren
- Jiangsu Provincial Key Lab for Organic Solid Waste Utilization, National Engineering Research Center for Organic-based Fertilizers, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, 210095, China
| | - Dongyan Jin
- National Hulunber Grassland Ecosystem Observation and Research Station, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Wu Xiong
- Jiangsu Provincial Key Lab for Organic Solid Waste Utilization, National Engineering Research Center for Organic-based Fertilizers, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, 210095, China
| | - Guishan Zhang
- Key Laboratory of Microbial Resources Collection and Preservation, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Zhongli Cui
- Jiangsu Provincial Key Lab for Organic Solid Waste Utilization, National Engineering Research Center for Organic-based Fertilizers, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, 210095, China
| | - Xiaoping Xin
- National Hulunber Grassland Ecosystem Observation and Research Station, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
| | - Ruifu Zhang
- Jiangsu Provincial Key Lab for Organic Solid Waste Utilization, National Engineering Research Center for Organic-based Fertilizers, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, 210095, China.
- Key Laboratory of Microbial Resources Collection and Preservation, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
| |
Collapse
|
31
|
Sterkenburg E, Clemmensen KE, Ekblad A, Finlay RD, Lindahl BD. Contrasting effects of ectomycorrhizal fungi on early and late stage decomposition in a boreal forest. ISME J 2018; 12:2187-2197. [PMID: 29880913 PMCID: PMC6092328 DOI: 10.1038/s41396-018-0181-2] [Citation(s) in RCA: 59] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/24/2017] [Revised: 03/20/2018] [Accepted: 04/10/2018] [Indexed: 01/16/2023]
Abstract
Symbiotic ectomycorrhizal fungi have received increasing attention as regulators of below-ground organic matter storage. They are proposed to promote organic matter accumulation by suppressing saprotrophs, but have also been suggested to play an active role in decomposition themselves. Here we show that exclusion of tree roots and associated ectomycorrhizal fungi in a boreal forest increased decomposition of surface litter by 11% by alleviating nitrogen limitation of saprotrophs-a "Gadgil effect". At the same time, root exclusion decreased Mn-peroxidase activity in the deeper mor layer by 91%. Our results show that ectomycorrhizal fungi may hamper short-term litter decomposition, but also support a crucial role of ectomycorrhizal fungi in driving long-term organic matter oxidation. These observations stress the importance of ectomycorrhizal fungi in regulation of below-ground organic matter accumulation. By different mechanisms they may either hamper or stimulate decomposition, depending upon stage of decomposition and location in the soil profile.
Collapse
Affiliation(s)
- Erica Sterkenburg
- Swedish University of Agricultural Sciences, Uppsala BioCenter, Department of Forest Mycology and Plant Pathology, Box 7026, SE-750 07, Uppsala, Sweden
| | - Karina E Clemmensen
- Swedish University of Agricultural Sciences, Uppsala BioCenter, Department of Forest Mycology and Plant Pathology, Box 7026, SE-750 07, Uppsala, Sweden
| | - Alf Ekblad
- School of Science and Technology, Örebro University, SE-701 85, Örebro, Sweden
| | - Roger D Finlay
- Swedish University of Agricultural Sciences, Uppsala BioCenter, Department of Forest Mycology and Plant Pathology, Box 7026, SE-750 07, Uppsala, Sweden
| | - Björn D Lindahl
- Swedish University of Agricultural Sciences, Department of Soil and Environment, Box 7014, SE-750 07, Uppsala, Sweden.
| |
Collapse
|
32
|
Liu Y, Sun Q, Li J, Lian B. Bacterial diversity among the fruit bodies of ectomycorrhizal and saprophytic fungi and their corresponding hyphosphere soils. Sci Rep 2018; 8:11672. [PMID: 30076360 PMCID: PMC6076286 DOI: 10.1038/s41598-018-30120-6] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2017] [Accepted: 07/24/2018] [Indexed: 11/08/2022] Open
Abstract
Macro-fungi play important roles in the soil elemental cycle in terrestrial ecosystems. Many researchers have focused on the interactions between mycorrhizal fungi and host plants, whilst comparatively few studies aim to characterise the relationships between macro-fungi and bacteria in situ. In this study, we detected endophytic bacteria within fruit bodies of ectomycorrhizal and saprophytic fungi (SAF) using high-throughput sequencing technology, as well as bacterial diversity in the corresponding hyphosphere soils below the fruit bodies. Bacteria such as Helicobacter, Escherichia-Shigella, and Bacillus were found to dominate within fruit bodies, indicating that they were crucial in the development of macro-fungi. The bacterial richness in the hyphosphere soils of ectomycorrhizal fungi (EcMF) was higher than that of SAF and significant difference in the composition of bacterial communities was observed. There were more Verrucomicrobia and Bacteroides in the hyphosphere soils of EcMF, and comparatively more Actinobacteria and Chloroflexi in the hyphosphere of SAF. The results indicated that the two types of macro-fungi can enrich, and shape the bacteria compatible with their respective ecological functions. This study will be beneficial to the further understanding of interactions between macro-fungi and relevant bacteria.
Collapse
Affiliation(s)
- Yaping Liu
- Jiangsu Key Laboratory for Microbes and Functional Genomics, College of Life Sciences, Nanjing Normal University, Nanjing, 210023, China
| | - Qibiao Sun
- Jiangsu Key Laboratory for Microbes and Functional Genomics, College of Life Sciences, Nanjing Normal University, Nanjing, 210023, China
| | - Jing Li
- Jiangsu Key Laboratory for Microbes and Functional Genomics, College of Life Sciences, Nanjing Normal University, Nanjing, 210023, China
| | - Bin Lian
- Jiangsu Key Laboratory for Microbes and Functional Genomics, College of Life Sciences, Nanjing Normal University, Nanjing, 210023, China.
| |
Collapse
|
33
|
Krah FS, Bässler C, Heibl C, Soghigian J, Schaefer H, Hibbett DS. Evolutionary dynamics of host specialization in wood-decay fungi. BMC Evol Biol 2018; 18:119. [PMID: 30075699 PMCID: PMC6091043 DOI: 10.1186/s12862-018-1229-7] [Citation(s) in RCA: 56] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2017] [Accepted: 07/03/2018] [Indexed: 11/23/2022] Open
Abstract
Background The majority of wood decomposing fungi are mushroom-forming Agaricomycetes, which exhibit two main modes of plant cell wall decomposition: white rot, in which all plant cell wall components are degraded, including lignin, and brown rot, in which lignin is modified but not appreciably removed. Previous studies suggested that brown rot fungi tend to be specialists of gymnosperm hosts and that brown rot promotes gymnosperm specialization. However, these hypotheses were based on analyses of limited datasets of Agaricomycetes. Overcoming this limitation, we used a phylogeny with 1157 species integrating available sequences, assembled decay mode characters from the literature, and coded host specialization using the newly developed R package, rusda. Results We found that most brown rot fungi are generalists or gymnosperm specialists, whereas most white rot fungi are angiosperm specialists. A six-state model of the evolution of host specialization revealed high transition rates between generalism and specialization in both decay modes. However, while white rot lineages switched most frequently to angiosperm specialists, brown rot lineages switched most frequently to generalism. A time-calibrated phylogeny revealed that Agaricomycetes is older than the flowering plants but many of the large clades originated after the diversification of the angiosperms in the Cretaceous. Conclusions Our results challenge the current view that brown rot fungi are primarily gymnosperm specialists and reveal intensive white rot specialization to angiosperm hosts. We thus suggest that brown rot associated convergent loss of lignocellulose degrading enzymes was correlated with host generalism, rather than gymnosperm specialism. A likelihood model of host specialization evolution together with a time-calibrated phylogeny further suggests that the rise of the angiosperms opened a new mega-niche for wood-decay fungi, which was exploited particularly well by white rot lineages. Electronic supplementary material The online version of this article (10.1186/s12862-018-1229-7) contains supplementary material, which is available to authorized users.
Collapse
Affiliation(s)
- Franz-Sebastian Krah
- Plant Biodiversity Research Group, Center for Food and Life Sciences Weihenstephan, Technische Universität München, Freising, Germany. .,Baverian Forest National Park, Grafenau, Germany.
| | | | | | - John Soghigian
- Department of Environmental Science, The Connecticut Agricultural Experiment Station, New Haven, CT, 06511, USA
| | - Hanno Schaefer
- Plant Biodiversity Research Group, Center for Food and Life Sciences Weihenstephan, Technische Universität München, Freising, Germany
| | - David S Hibbett
- Biology Department, Clark University, Worcester, MA, 01610, USA
| |
Collapse
|
34
|
Liu Y, Zhou Y, Liu M, Wang Q, Li Y. Extraction optimization, characterization, antioxidant and immunomodulatory activities of a novel polysaccharide from the wild mushroom Paxillus involutus. Int J Biol Macromol 2018; 112:326-32. [DOI: 10.1016/j.ijbiomac.2018.01.132] [Citation(s) in RCA: 55] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2017] [Revised: 01/11/2018] [Accepted: 01/19/2018] [Indexed: 01/11/2023]
|
35
|
Op De Beeck M, Troein C, Peterson C, Persson P, Tunlid A. Fenton reaction facilitates organic nitrogen acquisition by an ectomycorrhizal fungus. New Phytol 2018; 218:335-343. [PMID: 29297591 PMCID: PMC5873446 DOI: 10.1111/nph.14971] [Citation(s) in RCA: 36] [Impact Index Per Article: 6.0] [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: 09/29/2017] [Accepted: 11/27/2017] [Indexed: 05/05/2023]
Abstract
Boreal trees rely on their ectomycorrhizal fungal symbionts to acquire growth-limiting nutrients, such as nitrogen (N), which mainly occurs as proteins complexed in soil organic matter (SOM). The mechanisms for liberating this N are unclear as ectomycorrhizal fungi have lost many genes encoding lignocellulose-degrading enzymes present in their saprotrophic ancestors. We hypothesized that hydroxyl radicals (˙ OH), produced by the ectomycorrhizal fungus Paxillus involutus during growth on SOM, are involved in liberating organic N. Paxillus involutus was grown for 7 d on N-containing or N-free substrates that represent major organic compounds of SOM. ˙ OH production, ammonium assimilation, and proteolytic activity were measured daily. ˙ OH production was strongly induced when P. involutus switched from ammonium to protein as the main N source. Extracellular proteolytic activity was initiated shortly after the oxidation. Oxidized protein substrates induced higher proteolytic activity than unmodified proteins. Dynamic modeling predicted that ˙ OH production occurs in a burst, regulated mainly by ammonium and ferric iron concentrations. We propose that the production of ˙ OH and extracellular proteolytic enzymes are regulated by similar nutritional signals. Oxidation works in concert with proteolysis, improving N liberation from proteins in SOM. Organic N mining by ectomycorrhizal fungi has, until now, only been attributed to proteolysis.
Collapse
Affiliation(s)
- Michiel Op De Beeck
- Department of BiologyMicrobial Ecology GroupLund UniversityEcology BuildingSE‐223 62LundSweden
| | - Carl Troein
- Department of Astronomy and Theoretical Physics, Computational Biology and Biological PhysicsLund UniversitySölvegatan 14ASE‐223 62LundSweden
| | - Carsten Peterson
- Department of Astronomy and Theoretical Physics, Computational Biology and Biological PhysicsLund UniversitySölvegatan 14ASE‐223 62LundSweden
| | - Per Persson
- Department of BiologyMicrobial Ecology GroupLund UniversityEcology BuildingSE‐223 62LundSweden
- Centre for Environmental and Climate Research (CEC)Lund UniversityEcology BuildingSE‐223 62LundSweden
| | - Anders Tunlid
- Department of BiologyMicrobial Ecology GroupLund UniversityEcology BuildingSE‐223 62LundSweden
| |
Collapse
|
36
|
Wang T, Tian Z, Bengtson P, Tunlid A, Persson P. Mineral surface-reactive metabolites secreted during fungal decomposition contribute to the formation of soil organic matter. Environ Microbiol 2017; 19:5117-5129. [PMID: 29124857 DOI: 10.1111/1462-2920.13990] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2017] [Revised: 09/27/2017] [Accepted: 10/02/2017] [Indexed: 11/27/2022]
Abstract
Soil organic matter (SOM) constitutes the largest terrestrial C pool. An emerging, untested, view is that oxidation and depolymerization of SOM by microorganisms promote the formation of SOM-mineral associations that is critical for SOM stabilization. To test this hypothesis, we performed laboratory-scale experiments involving one ectomycorrhizal and one saprotrophic fungus that represent the two major functional groups of microbial decomposers in the boreal forest soils. Fungal decomposition enhanced the retention of SOM on goethite, partly because of oxidative modifications of organic matter (OM) by the fungi. Moreover, both fungi secreted substantial amounts (> 10% new biomass C) of aromatic metabolites that also contributed to an enhanced mineral retention of OM. Our study demonstrates that soil fungi can form mineral-stabilized SOM not only by oxidative conversion of the SOM but also by synthesizing mineral surface-reactive metabolites. Metabolites produced by fungal decomposers can play a yet overlooked role in the formation and stabilization of SOM.
Collapse
Affiliation(s)
- Tao Wang
- Department of Biology, Microbial Ecology Group, Lund University, Ecology Building, 223 62 Lund, Sweden
| | - Zhaomo Tian
- Department of Biology, Microbial Ecology Group, Lund University, Ecology Building, 223 62 Lund, Sweden.,Centre for Environmental and Climate Research (CEC), Lund University, Ecology Building, 223 62 Lund, Sweden
| | - Per Bengtson
- Department of Biology, Microbial Ecology Group, Lund University, Ecology Building, 223 62 Lund, Sweden
| | - Anders Tunlid
- Department of Biology, Microbial Ecology Group, Lund University, Ecology Building, 223 62 Lund, Sweden
| | - Per Persson
- Department of Biology, Microbial Ecology Group, Lund University, Ecology Building, 223 62 Lund, Sweden.,Centre for Environmental and Climate Research (CEC), Lund University, Ecology Building, 223 62 Lund, Sweden
| |
Collapse
|
37
|
Smith GR, Finlay RD, Stenlid J, Vasaitis R, Menkis A. Growing evidence for facultative biotrophy in saprotrophic fungi: data from microcosm tests with 201 species of wood-decay basidiomycetes. New Phytol 2017; 215:747-755. [PMID: 28382741 DOI: 10.1111/nph.14551] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [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: 01/02/2017] [Accepted: 02/24/2017] [Indexed: 06/07/2023]
Abstract
Ectomycorrhizal (ECM) symbioses have evolved a minimum of 78 times independently from saprotrophic lineages, indicating the potential for functional overlap between ECM and saprotrophic fungi. ECM fungi have the capacity to decompose organic matter, and although there is increasing evidence that some saprotrophic fungi exhibit the capacity to enter into facultative biotrophic relationships with plant roots without causing disease symptoms, this subject is still not well studied. In order to determine the extent of biotrophic capacity in saprotrophic wood-decay fungi and which systems may be useful models, we investigated the colonization of conifer seedling roots in vitro using an array of 201 basidiomycete wood-decay fungi. Microtome sectioning, differential staining and fluorescence microscopy were used to visualize patterns of root colonization in microcosm systems containing Picea abies or Pinus sylvestris seedlings and each saprotrophic fungus. Thirty-four (16.9%) of the tested fungal species colonized the roots of at least one tree species. Two fungal species showed formation of a mantle and one showed Hartig net-like structures. These features suggest the possibility of an active functional symbiosis between fungus and plant. The data indicate that the capacity for facultative biotrophic relationships in free-living saprotrophic basidiomycetes may be greater than previously supposed.
Collapse
Affiliation(s)
- Gabriel R Smith
- Department of Biology, Stanford University, 371 Serra Mall, Stanford, CA, 94305, USA
| | - Roger D Finlay
- Department of Forest Mycology and Plant Pathology, Uppsala BioCenter, Swedish University of Agricultural Sciences, PO Box 7026, Uppsala, SE-75007, Sweden
| | - Jan Stenlid
- Department of Forest Mycology and Plant Pathology, Uppsala BioCenter, Swedish University of Agricultural Sciences, PO Box 7026, Uppsala, SE-75007, Sweden
| | - Rimvydas Vasaitis
- Department of Forest Mycology and Plant Pathology, Uppsala BioCenter, Swedish University of Agricultural Sciences, PO Box 7026, Uppsala, SE-75007, Sweden
| | - Audrius Menkis
- Department of Forest Mycology and Plant Pathology, Uppsala BioCenter, Swedish University of Agricultural Sciences, PO Box 7026, Uppsala, SE-75007, Sweden
| |
Collapse
|
38
|
Abstract
Fungi represent a large proportion of the genetic diversity on Earth and fungal activity influences the structure of plant and animal communities, as well as rates of ecosystem processes. Large-scale DNA-sequencing datasets are beginning to reveal the dimensions of fungal biodiversity, which seem to be fundamentally different to bacteria, plants and animals. In this Review, we describe the patterns of fungal biodiversity that have been revealed by molecular-based studies. Furthermore, we consider the evidence that supports the roles of different candidate drivers of fungal diversity at a range of spatial scales, as well as the role of dispersal limitation in maintaining regional endemism and influencing local community assembly. Finally, we discuss the ecological mechanisms that are likely to be responsible for the high heterogeneity that is observed in fungal communities at local scales.
Collapse
Affiliation(s)
- Kabir G Peay
- Department of Biology, Stanford University, Stanford, California 94305, USA
| | - Peter G Kennedy
- Department of Plant Biology, University of Minnesota.,Department of Ecology, Evolution and Behavior, University of Minnesota, St. Paul, Minnesota 55108, USA
| | - Jennifer M Talbot
- Department of Biology, Boston University, Boston, Massachusetts 02215, USA
| |
Collapse
|
39
|
Pickles BJ, Wilhelm R, Asay AK, Hahn AS, Simard SW, Mohn WW. Transfer of 13 C between paired Douglas-fir seedlings reveals plant kinship effects and uptake of exudates by ectomycorrhizas. New Phytol 2017; 214:400-411. [PMID: 27870059 DOI: 10.1111/nph.14325] [Citation(s) in RCA: 39] [Impact Index Per Article: 5.6] [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: 08/12/2016] [Accepted: 10/08/2016] [Indexed: 05/27/2023]
Abstract
Processes governing the fixation, partitioning, and mineralization of carbon in soils are under increasing scrutiny as we develop a more comprehensive understanding of global carbon cycling. Here we examined fixation by Douglas-fir seedlings and transfer to associated ectomycorrhizal fungi, soil microbes, and full-sibling or nonsibling neighbouring seedlings. Stable isotope probing with 99% 13 C-CO2 was applied to trace 13 C-labelled photosynthate throughout plants, fungi, and soil microbes in an experiment designed to assess the effect of relatedness on 13 C transfer between plant pairs. The fixation and transfer of the 13 C label to plant, fungal, and soil microbial tissue was examined in biomass and phospholipid fatty acids. After a 6 d chase period, c. 26.8% of the 13 C remaining in the system was translocated below ground. Enrichment was proportionally greatest in ectomycorrhizal biomass. The presence of mesh barriers (0.5 or 35 μm) between seedlings did not restrict 13 C transfer. Fungi were the primary recipients of 13 C-labelled photosynthate throughout the system, representing 60-70% of total 13 C-enriched phospholipids. Full-sibling pairs exhibited significantly greater 13 C transfer to recipient roots in two of four Douglas-fir families, representing three- and fourfold increases (+ c. 4 μg excess 13 C) compared with nonsibling pairs. The existence of a root/mycorrhizal exudation-hyphal uptake pathway was supported.
Collapse
Affiliation(s)
- Brian J Pickles
- Department of Forest and Conservation Sciences, University of British Columbia, Vancouver, BC, Canada, V6T 1Z4
- School of Biological Sciences, University of Reading, Harborne Building, Whiteknights, Reading, RG6 6AS, UK
| | - Roland Wilhelm
- Department of Microbiology & Immunology, Life Sciences Institute, University of British Columbia, Vancouver, BC, Canada, V6T 1Z3
| | - Amanda K Asay
- Department of Forest and Conservation Sciences, University of British Columbia, Vancouver, BC, Canada, V6T 1Z4
| | - Aria S Hahn
- Department of Microbiology & Immunology, Life Sciences Institute, University of British Columbia, Vancouver, BC, Canada, V6T 1Z3
| | - Suzanne W Simard
- Department of Forest and Conservation Sciences, University of British Columbia, Vancouver, BC, Canada, V6T 1Z4
| | - William W Mohn
- Department of Microbiology & Immunology, Life Sciences Institute, University of British Columbia, Vancouver, BC, Canada, V6T 1Z3
| |
Collapse
|
40
|
Pérez-Izquierdo L, Zabal-Aguirre M, Flores-Rentería D, González-Martínez SC, Buée M, Rincón A. Functional outcomes of fungal community shifts driven by tree genotype and spatial-temporal factors in Mediterranean pine forests. Environ Microbiol 2017; 19:1639-1652. [DOI: 10.1111/1462-2920.13690] [Citation(s) in RCA: 37] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2016] [Revised: 01/24/2017] [Accepted: 02/02/2017] [Indexed: 12/01/2022]
Affiliation(s)
| | | | | | | | - Marc Buée
- INRA, UMR1136 INRA Nancy - Université de Lorraine, Interactions Arbres-Microorganismes Labex ARBRE; Champenoux 54280 France
| | - Ana Rincón
- Instituto de Ciencias Agrarias; ICA-CSIC. Serrano 115bis Madrid 28006 Spain
| |
Collapse
|
41
|
|
42
|
Guo P, Han T, Zhang L, Li S, Ma D, Du Y. Changes of soil bacterial activities and functions after different N additions in a temperate forest. Environ Sci Pollut Res Int 2017; 24:3853-3860. [PMID: 27900719 DOI: 10.1007/s11356-016-8141-8] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [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: 12/30/2015] [Accepted: 11/22/2016] [Indexed: 06/06/2023]
Abstract
It has been shown that different nitrogen (N) addition led to various influences on soil microbial activities in forest ecosystems; however, the changes of bacteria were still unclear. In this work, inorganic N (NH4NO3) and organic N (urea and glycine) were fertilized with different ratios (5:0, 1:4, 3:2, 2:3, and 1:4) on temperate forest soils, while fungicide (cycloheximide) was simultaneously added on half of each treatment to inhibit fungal activities (leaving only bacteria). After a 3-year field experiment, soil samples were harvested, then microbial enzymatic activities involved in carbon (C), and N and phosphorus (P) cycles were determined. Under laboratory conditions, four purified bacteria which were isolated from sample site had been inoculated in sterilized soils under different N types and enzymatic activities were assayed after 90-day incubation. The results showed that cellulase and polyphenol oxidase activities of non-fungicide-added treatments increased after N addition and greater organic N accelerated the increases. However, these enzymatic activities of fungicide-added treatments were not significantly influenced by N addition and N types. It may be due to the insufficient ability of bacteria to synthesize enough enzymes to decompose complex organic C (such as cellulose and lignin) into available compound, although N-limitation was alleviated. Alkaline phosphatase activities increased after N addition in both non-fungicide-added and fungicide-added treatments, and the acceleration on bacterial alkaline phosphatase activities was even greater. Furthermore, organic N showed at least 2.5 times promotion on bacteria alkaline phosphatase than those of inorganic N, which indicated greater alleviation of bacterial P-limitation after the addition of organic N. All the results indicated that soil bacteria may be seriously limited by soil available C but become the dominant decomposer of the complex P compounds after N addition, particularly greater organic N.
Collapse
Affiliation(s)
- Peng Guo
- Hebei College of Industry and Technology, Hongqi Street 626, Shijiazhuang, 050091, China.
| | - Tiwen Han
- Hebei College of Industry and Technology, Hongqi Street 626, Shijiazhuang, 050091, China
| | - Li Zhang
- Hebei College of Industry and Technology, Hongqi Street 626, Shijiazhuang, 050091, China
| | - Shushan Li
- Hebei College of Industry and Technology, Hongqi Street 626, Shijiazhuang, 050091, China
| | - Dongzhu Ma
- Hebei College of Industry and Technology, Hongqi Street 626, Shijiazhuang, 050091, China
| | - Yuhan Du
- Hebei College of Industry and Technology, Hongqi Street 626, Shijiazhuang, 050091, China
| |
Collapse
|
43
|
Selosse MA, Charpin M, Not F. Mixotrophy everywhere on land and in water: thegrand écarthypothesis. Ecol Lett 2016; 20:246-263. [DOI: 10.1111/ele.12714] [Citation(s) in RCA: 100] [Impact Index Per Article: 12.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2016] [Revised: 08/22/2016] [Accepted: 11/13/2016] [Indexed: 01/22/2023]
Affiliation(s)
- Marc-André Selosse
- Institut de Systématique, Évolution; Biodiversité (ISYEB - UMR 7205 - CNRS; MNHN; UPMC; EPHE); Muséum national d'Histoire naturelle; Sorbonne Universités; 57 rue Cuvier CP50 75005 Paris France
- Department of Plant Taxonomy and Nature Conservation; University of Gdansk; Wita Stwosza 59 80-308 Gdansk Poland
| | - Marie Charpin
- Université Blaise Pascal; Clermont-Ferrand; CNRS Laboratoire micro-organismes: Génome et Environnement; UMR 6023 1 Impasse Amélie Murat 63178 Aubière France
| | - Fabrice Not
- Sorbonne Universités; UPMC Université Paris 06; CNRS; Laboratoire Adaptation et Diversité en Milieu Marin UMR7144; Station Biologique de Roscoff; 29680 Roscoff France
| |
Collapse
|
44
|
Abstract
The niche is generally viewed in terms of species' intrinsic physiological potential and limitations due to competition. Although DNA sequencing has revealed the ubiquity of beneficial microbial symbioses, the role of mutualisms in shaping species niches is not broadly recognized. In this review, I use a widespread terrestrial mutualism, the ectomycorrhizal symbiosis, to help develop the mutualistic niche concept. Using contemporary niche theory, I show how mycorrhizal symbioses expand environmental ranges (requirement niche) and influence resource use (impact niche) for both plants and fungi. Simple niche models for competition between resource specialists and generalists also predict a range of ecological phenomena, from unexpected monodominance by some tropical trees to the functional biogeography of mycorrhizal symbiosis. A niche-based view of mutualism may also help explain stability of mutualisms even in the absence of clear benefits. The niche is a central concept in ecology, and better integration of mutualism will more accurately reflect the positive interactions experienced by nearly all species.
Collapse
Affiliation(s)
- Kabir G. Peay
- Department of Biology, Stanford University, Stanford, California 94122
| |
Collapse
|
45
|
Abstract
During the diversification of Fungi and the rise of conifer-dominated and angiosperm- dominated forests, mutualistic symbioses developed between certain trees and ectomycorrhizal fungi that enabled these trees to colonize boreal and temperate regions. The evolutionary success of these symbioses is evident from phylogenomic analyses that suggest that ectomycorrhizal fungi have arisen in approximately 60 independent saprotrophic lineages, which has led to the wide range of ectomycorrhizal associations that exist today. In this Review, we discuss recent genomic studies that have revealed the adaptations that seem to be fundamental to the convergent evolution of ectomycorrhizal fungi, including the loss of some metabolic functions and the acquisition of effectors that facilitate mutualistic interactions with host plants. Finally, we consider how these insights can be integrated into a model of the development of ectomycorrhizal symbioses.
Collapse
Affiliation(s)
- Francis Martin
- Institut national de la recherche agronomique (INRA), Unité Mixte de Recherche 1136 Interactions Arbres/Microorganismes, Laboratoire d'excellence Recherches Avancés sur la Biologie de l'Arbre et les Ecosystèmes Forestiers (ARBRE), Centre INRA-Lorraine, 54280 Champenoux, France
| | - Annegret Kohler
- Institut national de la recherche agronomique (INRA), Unité Mixte de Recherche 1136 Interactions Arbres/Microorganismes, Laboratoire d'excellence Recherches Avancés sur la Biologie de l'Arbre et les Ecosystèmes Forestiers (ARBRE), Centre INRA-Lorraine, 54280 Champenoux, France
| | - Claude Murat
- Institut national de la recherche agronomique (INRA), Unité Mixte de Recherche 1136 Interactions Arbres/Microorganismes, Laboratoire d'excellence Recherches Avancés sur la Biologie de l'Arbre et les Ecosystèmes Forestiers (ARBRE), Centre INRA-Lorraine, 54280 Champenoux, France
| | - Claire Veneault-Fourrey
- Université de Lorraine, Unité Mixte de Recherche 1136 Interactions Arbres/Microorganismes, Laboratoire d'excellence Recherches Avancées sur la Biologie de l'Arbre et les Ecosystèmes Forestiers (ARBRE), 54500 Vandoeuvre-lès-Nancy, France
| | - David S Hibbett
- Biology Department, Clark University, Lasry Center for Bioscience, 950 Main Street, Worcester, Massachusetts 01610, USA
| |
Collapse
|
46
|
Sun H, Terhonen E, Kovalchuk A, Tuovila H, Chen H, Oghenekaro AO, Heinonsalo J, Kohler A, Kasanen R, Vasander H, Asiegbu FO. Dominant Tree Species and Soil Type Affect the Fungal Community Structure in a Boreal Peatland Forest. Appl Environ Microbiol 2016; 82:2632-2643. [PMID: 26896139 PMCID: PMC4836437 DOI: 10.1128/aem.03858-15] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2015] [Accepted: 02/15/2016] [Indexed: 12/23/2022] Open
Abstract
Boreal peatlands play a crucial role in global carbon cycling, acting as an important carbon reservoir. However, little information is available on how peatland microbial communities are influenced by natural variability or human-induced disturbances. In this study, we have investigated the fungal diversity and community structure of both the organic soil layer and buried wood in boreal forest soils using high-throughput sequencing of the internal transcribed spacer (ITS) region. We have also compared the fungal communities during the primary colonization of wood with those of the surrounding soils. A permutational multivariate analysis of variance (PERMANOVA) confirmed that the community composition significantly differed between soil types (P< 0.001) and tree species (P< 0.001). The distance-based linear models analysis showed that environmental variables were significantly correlated with community structure (P< 0.04). The availability of soil nutrients (Ca [P= 0.002], Fe [P= 0.003], and P [P= 0.003]) within the site was an important factor in the fungal community composition. The species richness in wood was significantly lower than in the corresponding soil (P< 0.004). The results of the molecular identification were supplemented by fruiting body surveys. Seven of the genera of Agaricomycotina identified in our surveys were among the top 20 genera observed in pyrosequencing data. Our study is the first, to our knowledge, fungal high-throughput next-generation sequencing study performed on peatlands; it further provides a baseline for the investigation of the dynamics of the fungal community in the boreal peatlands.
Collapse
Affiliation(s)
- Hui Sun
- Collaborative Innovation Center of Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing, China
- Department of Forest Sciences, University of Helsinki, Helsinki, Finland
- Department of Food and Environmental Sciences, University of Helsinki, Helsinki, Finland
| | - Eeva Terhonen
- Department of Forest Sciences, University of Helsinki, Helsinki, Finland
| | - Andriy Kovalchuk
- Department of Forest Sciences, University of Helsinki, Helsinki, Finland
| | - Hanna Tuovila
- Department of Biological and Environmental Science, University of Jyväskylä, Jyväskylä, Finland
| | - Hongxin Chen
- Department of Forest Sciences, University of Helsinki, Helsinki, Finland
| | - Abbot O Oghenekaro
- Department of Forest Sciences, University of Helsinki, Helsinki, Finland
| | - Jussi Heinonsalo
- Department of Food and Environmental Sciences, University of Helsinki, Helsinki, Finland
| | - Annegret Kohler
- UMR 1136 INRA/Université de Lorraine, Interactions Arbres/Microorganismes, INRA, Institut National de la Recherche Agronomique, Centre INRA de Nancy, Champenoux, France
| | - Risto Kasanen
- Department of Forest Sciences, University of Helsinki, Helsinki, Finland
- Natural Resources Institute Finland (LUKE), Vantaa, Finland
| | - Harri Vasander
- Department of Forest Sciences, University of Helsinki, Helsinki, Finland
| | - Fred O Asiegbu
- Department of Forest Sciences, University of Helsinki, Helsinki, Finland
| |
Collapse
|
47
|
Jargeat P, Moreau PA, Gryta H, Chaumeton JP, Gardes M. Paxillus rubicundulus (Boletales, Paxillaceae) and two new alder-specific ectomycorrhizal species, Paxillus olivellus and Paxillus adelphus, from Europe and North Africa. Fungal Biol 2016; 120:711-28. [DOI: 10.1016/j.funbio.2016.02.008] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2015] [Revised: 02/23/2016] [Accepted: 02/24/2016] [Indexed: 11/27/2022]
|
48
|
Shah F, Nicolás C, Bentzer J, Ellström M, Smits M, Rineau F, Canbäck B, Floudas D, Carleer R, Lackner G, Braesel J, Hoffmeister D, Henrissat B, Ahrén D, Johansson T, Hibbett DS, Martin F, Persson P, Tunlid A. Ectomycorrhizal fungi decompose soil organic matter using oxidative mechanisms adapted from saprotrophic ancestors. New Phytol 2016; 209:1705-19. [PMID: 26527297 PMCID: PMC5061094 DOI: 10.1111/nph.13722] [Citation(s) in RCA: 107] [Impact Index Per Article: 13.4] [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: 06/08/2015] [Accepted: 09/22/2015] [Indexed: 05/21/2023]
Abstract
Ectomycorrhizal fungi are thought to have a key role in mobilizing organic nitrogen that is trapped in soil organic matter (SOM). However, the extent to which ectomycorrhizal fungi decompose SOM and the mechanism by which they do so remain unclear, considering that they have lost many genes encoding lignocellulose-degrading enzymes that are present in their saprotrophic ancestors. Spectroscopic analyses and transcriptome profiling were used to examine the mechanisms by which five species of ectomycorrhizal fungi, representing at least four origins of symbiosis, decompose SOM extracted from forest soils. In the presence of glucose and when acquiring nitrogen, all species converted the organic matter in the SOM extract using oxidative mechanisms. The transcriptome expressed during oxidative decomposition has diverged over evolutionary time. Each species expressed a different set of transcripts encoding proteins associated with oxidation of lignocellulose by saprotrophic fungi. The decomposition 'toolbox' has diverged through differences in the regulation of orthologous genes, the formation of new genes by gene duplications, and the recruitment of genes from diverse but functionally similar enzyme families. The capacity to oxidize SOM appears to be common among ectomycorrhizal fungi. We propose that the ancestral decay mechanisms used primarily to obtain carbon have been adapted in symbiosis to scavenge nutrients instead.
Collapse
Affiliation(s)
- Firoz Shah
- Department of BiologyMicrobial Ecology GroupLund UniversityEcology BuildingSE‐223 62LundSweden
| | - César Nicolás
- Department of BiologyMicrobial Ecology GroupLund UniversityEcology BuildingSE‐223 62LundSweden
| | - Johan Bentzer
- Department of BiologyMicrobial Ecology GroupLund UniversityEcology BuildingSE‐223 62LundSweden
| | - Magnus Ellström
- Department of BiologyMicrobial Ecology GroupLund UniversityEcology BuildingSE‐223 62LundSweden
| | - Mark Smits
- Centre for Environmental SciencesHasselt UniversityBuilding DAgoralaan3590DiepenbeekLimburgBelgium
| | - Francois Rineau
- Centre for Environmental SciencesHasselt UniversityBuilding DAgoralaan3590DiepenbeekLimburgBelgium
| | - Björn Canbäck
- Department of BiologyMicrobial Ecology GroupLund UniversityEcology BuildingSE‐223 62LundSweden
| | - Dimitrios Floudas
- Department of BiologyMicrobial Ecology GroupLund UniversityEcology BuildingSE‐223 62LundSweden
- Biology DepartmentLasry Center for BioscienceClark University950 Main StreetWorcesterMA01610‐1477USA
| | - Robert Carleer
- Centre for Environmental SciencesHasselt UniversityBuilding DAgoralaan3590DiepenbeekLimburgBelgium
| | - Gerald Lackner
- Department of Pharmaceutical Microbiology at the Hans Knöll InstituteFriedrich‐Schiller‐UniversitätBeutenbergstrasse 11a07745JenaGermany
| | - Jana Braesel
- Department of Pharmaceutical Microbiology at the Hans Knöll InstituteFriedrich‐Schiller‐UniversitätBeutenbergstrasse 11a07745JenaGermany
| | - Dirk Hoffmeister
- Department of Pharmaceutical Microbiology at the Hans Knöll InstituteFriedrich‐Schiller‐UniversitätBeutenbergstrasse 11a07745JenaGermany
| | - Bernard Henrissat
- Centre National de la Recherche Scientifique (CNRS)UMR7257Université Aix‐MarseilleMarseille13288France
- Department of Biological SciencesKing Abdulaziz UniversityJeddahSaudi Arabia
| | - Dag Ahrén
- Department of BiologyMicrobial Ecology GroupLund UniversityEcology BuildingSE‐223 62LundSweden
- Bioinformatics Infrastructures for Life Sciences (BILS)Department of BiologyLund UniversityEcology BuildingSE‐223 62LundSweden
| | - Tomas Johansson
- Department of BiologyMicrobial Ecology GroupLund UniversityEcology BuildingSE‐223 62LundSweden
| | - David S. Hibbett
- Biology DepartmentLasry Center for BioscienceClark University950 Main StreetWorcesterMA01610‐1477USA
| | - Francis Martin
- Institut de la Recherche Agronomique (INRA)Laboratory of Excellence ARBREUMR INRA‐Université de Lorraine ‘Interactions Arbres/Micro‐organismes’INRA‐Nancy54280ChampenouxFrance
| | - Per Persson
- Department of BiologyMicrobial Ecology GroupLund UniversityEcology BuildingSE‐223 62LundSweden
- Centre for Environmental and Climate Research (CEC)Lund UniversityEcology BuildingSE‐223 62LundSweden
| | - Anders Tunlid
- Department of BiologyMicrobial Ecology GroupLund UniversityEcology BuildingSE‐223 62LundSweden
| |
Collapse
|
49
|
Fernandez CW, Kennedy PG. Revisiting the 'Gadgil effect': do interguild fungal interactions control carbon cycling in forest soils? New Phytol 2016; 209:1382-94. [PMID: 26365785 DOI: 10.1111/nph.13648] [Citation(s) in RCA: 157] [Impact Index Per Article: 19.6] [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: 06/11/2015] [Accepted: 08/17/2015] [Indexed: 05/15/2023]
Abstract
In forest ecosystems, ectomycorrhizal and saprotrophic fungi play a central role in the breakdown of soil organic matter (SOM). Competition between these two fungal guilds has long been hypothesized to lead to suppression of decomposition rates, a phenomenon known as the 'Gadgil effect'. In this review, we examine the documentation, generality, and potential mechanisms involved in the 'Gadgil effect'. We find that the influence of ectomycorrhizal fungi on litter and SOM decomposition is much more variable than previously recognized. To explain the inconsistency in size and direction of the 'Gadgil effect', we argue that a better understanding of underlying mechanisms is required. We discuss the strengths and weaknesses of each of the primary mechanisms proposed to date and how using different experimental methods (trenching, girdling, microcosms), as well as considering different temporal and spatial scales, could influence the conclusions drawn about this phenomenon. Finally, we suggest that combining new research tools such as high-throughput sequencing with experiments utilizing natural environmental gradients will significantly deepen our understanding of the 'Gadgil effect' and its consequences on forest soil carbon and nutrient cycling.
Collapse
Affiliation(s)
- Christopher W Fernandez
- Departments of Plant Biology and Ecology, Evolution, and Behavior, University of Minnesota, St Paul, MN, 55108, USA
| | - Peter G Kennedy
- Departments of Plant Biology and Ecology, Evolution, and Behavior, University of Minnesota, St Paul, MN, 55108, USA
| |
Collapse
|
50
|
Chagnon PL, Rineau F, Kaiser C. Mycorrhizas across scales: a journey between genomics, global patterns of biodiversity and biogeochemistry. New Phytol 2016; 209:913-916. [PMID: 26756533 DOI: 10.1111/nph.13819] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Affiliation(s)
- Pierre-Luc Chagnon
- Department of Biological Sciences, University of Alberta, Edmonton, AB, T6G 2E9, Canada
| | - Francois Rineau
- Centre for Environmental Sciences, Environmental Biology Group, Hasselt University, Hasselt, BE3500, Belgium
| | - Christina Kaiser
- Department of Microbiology and Ecosystem Science, University of Vienna, Vienna, 1090, Austria
| |
Collapse
|