1
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Gundale MJ, Axelsson EP, Buness V, Callebaut T, DeLuca TH, Hupperts SF, Ibáñez TS, Metcalfe DB, Nilsson MC, Peichl M, Spitzer CM, Stangl ZR, Strengbom J, Sundqvist MK, Wardle DA, Lindahl BD. The biological controls of soil carbon accumulation following wildfire and harvest in boreal forests: A review. GLOBAL CHANGE BIOLOGY 2024; 30:e17276. [PMID: 38683126 DOI: 10.1111/gcb.17276] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/09/2024] [Revised: 03/29/2024] [Accepted: 03/30/2024] [Indexed: 05/01/2024]
Abstract
Boreal forests are frequently subjected to disturbances, including wildfire and clear-cutting. While these disturbances can cause soil carbon (C) losses, the long-term accumulation dynamics of soil C stocks during subsequent stand development is controlled by biological processes related to the balance of net primary production (NPP) and outputs via heterotrophic respiration and leaching, many of which remain poorly understood. We review the biological processes suggested to influence soil C accumulation in boreal forests. Our review indicates that median C accumulation rates following wildfire and clear-cutting are similar (0.15 and 0.20 Mg ha-1 year-1, respectively), however, variation between studies is extremely high. Further, while many individual studies show linear increases in soil C stocks through time after disturbance, there are indications that C stock recovery is fastest early to mid-succession (e.g. 15-80 years) and then slows as forests mature (e.g. >100 years). We indicate that the rapid build-up of soil C in younger stands appears not only driven by higher plant production, but also by a high rate of mycorrhizal hyphal production, and mycorrhizal suppression of saprotrophs. As stands mature, the balance between reductions in plant and mycorrhizal production, increasing plant litter recalcitrance, and ectomycorrhizal decomposers and saprotrophs have been highlighted as key controls on soil C accumulation rates. While some of these controls appear well understood (e.g. temporal patterns in NPP, changes in aboveground litter quality), many others remain research frontiers. Notably, very little data exists describing and comparing successional patterns of root production, mycorrhizal functional traits, mycorrhizal-saprotroph interactions, or C outputs via heterotrophic respiration and dissolved organic C following different disturbances. We argue that these less frequently described controls require attention, as they will be key not only for understanding ecosystem C balances, but also for representing these dynamics more accurately in soil organic C and Earth system models.
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Affiliation(s)
- Michael J Gundale
- Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, Umeå, Sweden
| | - E Petter Axelsson
- Department of Wildlife, Fish and Environmental Studies, Swedish University of Agricultural Sciences, Umeå, Sweden
| | - Vincent Buness
- Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, Umeå, Sweden
| | - Timon Callebaut
- Department of Environmental Science and Ecology, Umeå University, Umeå, Sweden
| | - Thomas H DeLuca
- College of Forestry, Oregon State University, Corvallis, Oregon, USA
| | - Stefan F Hupperts
- Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, Umeå, Sweden
| | - Theresa S Ibáñez
- Department of Wildlife, Fish and Environmental Studies, Swedish University of Agricultural Sciences, Umeå, Sweden
| | - Daniel B Metcalfe
- Department of Environmental Science and Ecology, Umeå University, Umeå, Sweden
| | - Marie-Charlotte Nilsson
- Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, Umeå, Sweden
| | - Matthias Peichl
- Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, Umeå, Sweden
| | - Clydecia M Spitzer
- Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, Umeå, Sweden
| | - Zsofia R Stangl
- Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, Umeå, Sweden
| | - Joachim Strengbom
- Department of Ecology, Swedish University of Agricultural Sciences, Uppsala, Sweden
| | - Maja K Sundqvist
- Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, Umeå, Sweden
| | - David A Wardle
- Department of Environmental Science and Ecology, Umeå University, Umeå, Sweden
| | - Björn D Lindahl
- Department of Soil Science, Swedish University of Agricultural Sciences, Uppsala, Sweden
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2
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Mafune KK, Vogt DJ, Vogt KA, Cline EC, Godfrey BJ, Bunn RA, Meade AJS. Old-growth Acer macrophyllum trees host a unique suite of arbuscular mycorrhizal fungi and other root-associated fungal taxa in their canopy soil environment. Mycologia 2023:1-14. [PMID: 37262388 DOI: 10.1080/00275514.2023.2206930] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2022] [Accepted: 04/14/2023] [Indexed: 06/03/2023]
Abstract
Canopy soils occur on tree branches throughout the temperate rainforests of the Pacific Northwest Coast and are recognized as a defining characteristic of these ecosystems. Certain tree species extend adventitious roots into these canopy soil environments. Yet, research on adventitious root-associated fungi remains limited. Our study used microscopy to compare fungal colonization intensity between canopy and forest floor roots of old-growth bigleaf maple (Acer macrophyllum) trees. Subsequently, two high-throughput sequencing platforms were used to explore the spatial and seasonal variation of root-associated fungi between the two soil environments over one year. We found that canopy and forest floor roots had similar colonization intensity and were associating with a diversity of arbuscular mycorrhizal fungi and other potential symbionts, many of which were resolved to species level. Soil environment and seasonality affected root-associated fungal community composition, and several fungal species were indicative of the canopy soil environment. In Washington State's (USA) temperate old-growth rainforests, these canopy soil environments host a unique suite of root-associated fungi. The presence of arbuscular mycorrhizae provides further evidence that adventitious roots form fungal associations to exploit canopy soils for resources, and there may be novel relationships forming with other fungi. These soils may be providing a redundancy compartment (i.e., "nutrient reserve"), imparting a resiliency to disturbances for certain old-growth trees.
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Affiliation(s)
- Korena K Mafune
- Department of Civil and Environmental Engineering, University of Washington, Seattle, Washington, 98105
- School of Environmental and Forest Sciences, University of Washington, Seattle, Washington, 98105
| | - Daniel J Vogt
- School of Environmental and Forest Sciences, University of Washington, Seattle, Washington, 98105
| | - Kristiina A Vogt
- School of Environmental and Forest Sciences, University of Washington, Seattle, Washington, 98105
| | - E C Cline
- Division of Sciences and Mathematics, University of Washington, Tacoma, Washington, 98402
| | - Bruce J Godfrey
- Department of Civil and Environmental Engineering, University of Washington, Seattle, Washington, 98105
| | - Rebecca A Bunn
- Department of Environmental Sciences, Western Washington University, Bellingham, Washington, 98225
| | - Alec J S Meade
- School of Environmental and Forest Sciences, University of Washington, Seattle, Washington, 98105
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3
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Floc'h JB, Hamel C, Laterrière M, Tidemann B, St-Arnaud M, Hijri M. Inter-Kingdom Networks of Canola Microbiome Reveal Bradyrhizobium as Keystone Species and Underline the Importance of Bulk Soil in Microbial Studies to Enhance Canola Production. MICROBIAL ECOLOGY 2022; 84:1166-1181. [PMID: 34727198 DOI: 10.1007/s00248-021-01905-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/08/2021] [Accepted: 10/19/2021] [Indexed: 06/13/2023]
Abstract
The subterranean microbiota of plants is of great importance for plant growth and health, as root-associated microbes can perform crucial ecological functions. As the microbial environment of roots is extremely diverse, identifying keystone microorganisms in plant roots, rhizosphere, and bulk soil is a necessary step towards understanding the network of influence within the microbial community associated with roots and enhancing its beneficial elements. To target these hot spots of microbial interaction, we used inter-kingdom network analysis on the canola growth phase of a long-term cropping system diversification experiment conducted at four locations in the Canadian Prairies. Our aims were to verify whether bacterial and fungal communities of canola roots, rhizosphere, and bulk soil are related and influenced by diversification of the crop rotation system; to determine whether there are common or specific core fungi and bacteria in the roots, rhizosphere, and bulk soil under canola grown in different environments and with different levels of cropping system diversification; and to identify hub taxa at the inter-kingdom level that could play an important ecological role in the microbiota of canola. Our results showed that fungi were influenced by crop diversification, which was not the case on bacteria. We found no core microbiota in canola roots but identified three core fungi in the rhizosphere, one core mycobiota in the bulk soil, and one core bacterium shared by the rhizosphere and bulk soil. We identified two bacterial and one fungal hub taxa in the inter-kingdom networks of the canola rhizosphere, and one bacterial and two fungal hub taxa in the bulk soil. Among these inter-kingdom hub taxa, Bradyrhizobium sp. and Mortierella sp. are particularly influential on the microbial community and the plant. To our knowledge, this is the first inter-kingdom network analysis utilized to identify hot spots of interaction in canola microbial communities.
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Affiliation(s)
- Jean-Baptiste Floc'h
- Institut de Recherche en Biologie Végétale, Université de Montréal and Jardin Botanique de Montréal, 4101 East, Sherbrooke Street, Montréal, QC, H1X 2B2, Canada
- Quebec Research and Development Centre, Agriculture and Agri-Food Canada, Quebec City, QC, Canada
| | - Chantal Hamel
- Institut de Recherche en Biologie Végétale, Université de Montréal and Jardin Botanique de Montréal, 4101 East, Sherbrooke Street, Montréal, QC, H1X 2B2, Canada
- Quebec Research and Development Centre, Agriculture and Agri-Food Canada, Quebec City, QC, Canada
| | - Mario Laterrière
- Quebec Research and Development Centre, Agriculture and Agri-Food Canada, Quebec City, QC, Canada
| | - Breanne Tidemann
- Lacombe Research and Development Centre, Agriculture and Agri-Food Canada, Lacombe, AB, Canada
| | - Marc St-Arnaud
- Institut de Recherche en Biologie Végétale, Université de Montréal and Jardin Botanique de Montréal, 4101 East, Sherbrooke Street, Montréal, QC, H1X 2B2, Canada
| | - Mohamed Hijri
- Institut de Recherche en Biologie Végétale, Université de Montréal and Jardin Botanique de Montréal, 4101 East, Sherbrooke Street, Montréal, QC, H1X 2B2, Canada.
- African Genome Center, Mohammed VI Polytechnic University (UM6P), Lot 660, Hay Moulay Rachid, 43150, Ben Guerir, Morocco.
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Karpouzas DG, Vryzas Z, Martin-Laurent F. Pesticide soil microbial toxicity: setting the scene for a new pesticide risk assessment for soil microorganisms (IUPAC Technical Report). PURE APPL CHEM 2022. [DOI: 10.1515/pac-2022-0201] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Abstract
Pesticides constitute an integral part of modern agriculture. However, there are still concerns about their effects on non-target organisms. To address this the European Commission has imposed a stringent regulatory scheme for new pesticide compounds. Assessment of the aquatic toxicity of pesticides is based on a range of advanced tests. This does not apply to terrestrial ecosystems, where the toxicity of pesticides on soil microorganisms, is based on an outdated and crude test (N mineralization). This regulatory gap is reinforced by the recent methodological and standardization advances in soil microbial ecology. The inclusion of such standardized tools in a revised risk assessment scheme will enable the accurate estimation of the toxicity of pesticides on soil microorganisms and on associated ecosystem services. In this review we (i) summarize recent work in the assessment of the soil microbial toxicity of pesticides and point to ammonia-oxidizing microorganisms (AOM) and arbuscular mycorrhizal fungi (AMF) as most relevant bioindicator groups (ii) identify limitations in the experimental approaches used and propose mitigation solutions, (iii) identify scientific gaps and (iv) propose a new risk assessment procedure to assess the effects of pesticides on soil microorganisms.
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Affiliation(s)
- Dimitrios G. Karpouzas
- Department of Biochemistry and Biotechnology , Laboratory of Plant and Environmental Biotechnology, University of Thessaly , Viopolis 41500 , Larissa , Greece
| | - Zisis Vryzas
- Department of Agricultural Development , Democritus University of Thrace , Orestiada , Greece
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5
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Bahureksa W, Tfaily MM, Boiteau RM, Young RB, Logan MN, McKenna AM, Borch T. Soil Organic Matter Characterization by Fourier Transform Ion Cyclotron Resonance Mass Spectrometry (FTICR MS): A Critical Review of Sample Preparation, Analysis, and Data Interpretation. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2021; 55:9637-9656. [PMID: 34232025 DOI: 10.1021/acs.est.1c01135] [Citation(s) in RCA: 60] [Impact Index Per Article: 20.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/06/2023]
Abstract
The biogeochemical cycling of soil organic matter (SOM) plays a central role in regulating soil health, water quality, carbon storage, and greenhouse gas emissions. Thus, many studies have been conducted to reveal how anthropogenic and climate variables affect carbon sequestration and nutrient cycling. Among the analytical techniques used to better understand the speciation and transformation of SOM, Fourier transform ion cyclotron resonance mass spectrometry (FTICR MS) is the only technique that has sufficient mass resolving power to separate and accurately assign elemental compositions to individual SOM molecules. The global increase in the application of FTICR MS to address SOM complexity has highlighted the many challenges and opportunities associated with SOM sample preparation, FTICR MS analysis, and mass spectral interpretation. Here, we provide a critical review of recent strategies for SOM characterization by FTICR MS with emphasis on SOM sample collection, preparation, analysis, and data interpretation. Data processing and visualization methods are presented with suggested workflows that detail the considerations needed for the application of molecular information derived from FTICR MS. Finally, we highlight current research gaps, biases, and future directions needed to improve our understanding of organic matter chemistry and cycling within terrestrial ecosystems.
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Affiliation(s)
- William Bahureksa
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80523, United States
| | - Malak M Tfaily
- Department of Environmental Science, University of Arizona, Tucson, Arizona 85721, United States
| | - Rene M Boiteau
- College of Earth, Ocean, Atmospheric Sciences, Oregon State University, Corvallis, Oregon 97331, United States
| | - Robert B Young
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80523-1170, United States
| | - Merritt N Logan
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80523, United States
| | - Amy M McKenna
- National High Magnetic Field Laboratory, Florida State University, 1800 East Paul Dirac Dr., Tallahassee, Florida 32310-4005, United States
| | - Thomas Borch
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80523, United States
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80523-1170, United States
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6
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Keller AB, Brzostek ER, Craig ME, Fisher JB, Phillips RP. Root‐derived inputs are major contributors to soil carbon in temperate forests, but vary by mycorrhizal type. Ecol Lett 2021; 24:626-635. [DOI: 10.1111/ele.13651] [Citation(s) in RCA: 31] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2020] [Revised: 11/05/2020] [Accepted: 11/09/2020] [Indexed: 12/24/2022]
Affiliation(s)
- Adrienne B. Keller
- Department of Biology Indiana University Bloomington Bloomington IM USA
- Department of Ecology, Evolution and Behavior University of Minnesota Twin Cities Minneapolis MN USA
| | | | - Matthew E. Craig
- Environmental Sciences Division and Climate Change Science Institute Oak Ridge National Laboratory Oak Ridge TN USA
| | - Joshua B. Fisher
- Jet Propulsion Laboratory California Institute of Technology Joint Institute for Regional Earth System Science and EngineeringUniversity of California at Los Angeles Los Angeles CA USA
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7
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Asplund J, Kauserud H, Ohlson M, Nybakken L. Spruce and beech as local determinants of forest fungal community structure in litter, humus and mineral soil. FEMS Microbiol Ecol 2019; 95:5211046. [PMID: 30481314 DOI: 10.1093/femsec/fiy232] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2018] [Accepted: 11/26/2018] [Indexed: 12/31/2022] Open
Abstract
Beech forests reaches its native distribution limit in SE Norway, but is expected to expand substantially northwards due to climate warming. This may potentially result in a fundamental transformation of contemporary Northern European forests, with tentative effects on the associated belowground fungi. Fungal communities mediate vital ecosystem processes such as ecosystem productivity and carbon sequestration in boreal forests. To investigate how soil fungi is affected by the vegetation transition from spruce to beech forest, we sampled litter, humus and mineral soil in a forest landscape dominated by beech, spruce or a mixture of these. The fungal communities in the soil samples were analyzed by DNA metabarcoding of the rDNA ITS2 region. Although soil layers were the most important structuring gradient, we found clear differences in fungal species composition between spruce and beech plots. The differences in fungal community composition were most evident in the litter and least in the mineral soil. Decomposers, most notably Mycena, dominated the litter layer while various mycorrhizal fungi dominated the humus and mineral layers. Some ectomycorrhizal taxa, such as Cenoccocum and Russula, were more abundant in spruce forests. Differences in fungal community composition between forest types can potentially have large impacts on carbon sequestration rates.
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Affiliation(s)
- Johan Asplund
- Faculty of Environmental Sciences and Natural Resource Management, Norwegian University of Life Sciences, P.O. Box 5003, NO-1432 Ås, Norway
| | - Håvard Kauserud
- Section for Genetics and Evolutionary Biology (Evogene), Department of Biology, University of Oslo, P.O. Box 1066 Blindern, NO-0316 Oslo, Norway
| | - Mikael Ohlson
- Faculty of Environmental Sciences and Natural Resource Management, Norwegian University of Life Sciences, P.O. Box 5003, NO-1432 Ås, Norway
| | - Line Nybakken
- Faculty of Environmental Sciences and Natural Resource Management, Norwegian University of Life Sciences, P.O. Box 5003, NO-1432 Ås, Norway
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8
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Keller AB, Phillips RP. Leaf litter decay rates differ between mycorrhizal groups in temperate, but not tropical, forests. THE NEW PHYTOLOGIST 2019; 222:556-564. [PMID: 30299541 DOI: 10.1111/nph.15524] [Citation(s) in RCA: 44] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/15/2018] [Accepted: 10/02/2018] [Indexed: 05/14/2023]
Abstract
Whereas the primary controls on litter decomposition are well established, we lack a framework for predicting interspecific differences in litter decay within and across ecosystems. Given previous research linking tree mycorrhizal association with carbon and nutrient dynamics, we hypothesized that the two dominant mycorrhizal groups in forests - arbuscular mycorrhizal (AM) and ectomycorrhizal (ECM) fungi - differ in litter decomposition rates. We compiled leaf litter chemistry and decay data for AM- and ECM-associating angiosperms and gymnosperms (> 200 species) from temperate and tropical/subtropical, and investigated relationships among decay rates, mycorrhizal association, phylogeny and climate. In temperate forests, AM litters decayed faster than ECM litters, with litter nitrogen and phylogeny best explaining variation in litter decay. In sub/tropical forests, we found no significant difference in litter decay rate between mycorrhizal groups, and variation in decay rates was best explained by litter phosphorus. Our results suggest that knowledge of tree mycorrhizal association may improve predictions of species effects on ecosystem processes, particularly in temperate forests where AM and ECM species commonly co-occur, providing a predictive framework for linking litter quality, organic matter dynamics and nutrient acquisition in forests.
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Affiliation(s)
- Adrienne B Keller
- Department of Biology, Indiana University, Jordan Hall, 1001 E. Third St, Bloomington, IN, 47405, USA
| | - Richard P Phillips
- Department of Biology, Indiana University, Jordan Hall, 1001 E. Third St, Bloomington, IN, 47405, USA
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9
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Fernandez CW, Heckman K, Kolka R, Kennedy PG. Melanin mitigates the accelerated decay of mycorrhizal necromass with peatland warming. Ecol Lett 2019; 22:498-505. [DOI: 10.1111/ele.13209] [Citation(s) in RCA: 46] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2018] [Revised: 10/24/2018] [Accepted: 11/08/2018] [Indexed: 01/24/2023]
Affiliation(s)
| | | | - Randall Kolka
- USDA Forest Service Northern Research Station, Grand Rapids, MN USA
| | - Peter G. Kennedy
- Department of Plant & Microbial Biology University of Minnesota St. Paul MN USA
- Department of Ecology, Evolution, and Behavior St. Paul MN USA
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10
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Mallmann GC, Sousa JP, Sundh I, Pieper S, Arena M, da Cruz SP, Klauberg-Filho O. Placing arbuscular mycorrhizal fungi on the risk assessment test battery of plant protection products (PPPs). ECOTOXICOLOGY (LONDON, ENGLAND) 2018; 27:809-818. [PMID: 29802487 DOI: 10.1007/s10646-018-1946-0] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Accepted: 04/27/2018] [Indexed: 06/08/2023]
Abstract
Arbuscular mycorrhizal fungi (AMF) are mutualistic symbionts considered a key group in soil systems involved in the provision of several ecosystem services. Recently they have been listed by EFSA as organisms to be included in the test battery for the risk assessment of plant protection product (PPPs). This study aimed to contribute to improve the ISO Protocol (ISO 10832: 2009) by assessing the feasibility of using other AMF species under different test conditions. Overall, results showed that AMF species Gigaspora albida and Rhizophagus clarus (selected out of five AMF species) are suitable to be used in spore germination tests using the ISO protocol (14 days incubation with sand or artificial soil as substrate) to test PPPs. However, several modifications to the protocol were made in order to accommodate the use of the tested isolates, namely the incubation temperature (28 °C instead of 24 °C) and the change of reference substance (boric acid instead of cadmium nitrate). The need for these changes, plus the results obtained with the three fungicides tested (chlorothalonil, mancozeb and metalaxyl-M) and comparisons made with literature on the relevance of the origin of AMF isolates in dictating the adequate test conditions, emphasize the importance of adjusting test conditions (AMF species/isolates and test temperature) when assessing effects for prospective risk assessment targeting different climatic zones. So, further studies should be conducted with different AMF species and isolates from different climatic regions, in order to better define which species/isolate and test conditions should be used to assess effects of a particular PPP targeting a given climatic zone.
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Affiliation(s)
| | - José Paulo Sousa
- Centre for Functional Ecology, Department of Life Sciences, University of Coimbra, Coimbra, Portugal
| | - Ingvar Sundh
- Swedish University of Agricultural Sciences, Uppsala, Sweden
| | - Silvia Pieper
- Federal Environment Agency, UBA, Dessau-Roßlau, Germany
| | | | - Sonia Purin da Cruz
- Universidade Federal de Santa Catarina, UFSC Curitibanos, Curitibanos, Brazil
| | - Osmar Klauberg-Filho
- Soil Science Department, Universidade do Estado de Santa Catarina, CAV, Lages, Brazil.
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11
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Harnessing fungi to mitigate CH 4 in natural and engineered systems. Appl Microbiol Biotechnol 2018; 102:7365-7375. [PMID: 29982927 DOI: 10.1007/s00253-018-9203-2] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2018] [Revised: 06/26/2018] [Accepted: 06/26/2018] [Indexed: 12/13/2022]
Abstract
Methane (CH4) is a powerful greenhouse gas emitted from natural and anthropogenic sources, and its emission rates vary among sources as a function of environment, microbial respiration, and feedbacks. Biological CH4 flux from natural and engineered systems is typically represented simply as generation of CH4 by methanogens minus oxidation by methanotrophs. In many cases, however, CH4 flux is modulated by transport and solubility mechanisms that occur before oxidation or other chemical transformation. The ability of fungi to directly oxidize CH4 remains unclear; however, their hydrophobic growths extending above microbial biofilms can improve surface area and sorption of hydrophobic gases. This can improve overall oxidation rates in a biofilm simply by improving phase transfer dynamics and bioavailability to bacterial or archaeal associates. This indirect facilitation is not necessarily intuitive, but there has been a recent emerging interest in harnessing these fungal abilities in engineering bioreactors and filtration systems designed to capture and oxidize CH4. These dynamics may be playing a similar facilitative role in natural CH4 oxidation, where fungi may indirectly influence carbon mineralization and methanogen/methanotroph communities, and/or directly oxidize and dissolve gaseous CH4. This review highlights these unique roles for fungi in determining net CH4 oxidation rates, and it summarizes the potential to harness fungi to mitigate CH4 emissions.
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13
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Beni Á, Lajtha K, Kozma J, Fekete I. Application of a Stir Bar Sorptive Extraction sample preparation method with HPLC for soil fungal biomass determination in soils from a detrital manipulation study. J Microbiol Methods 2017; 136:1-5. [DOI: 10.1016/j.mimet.2017.02.009] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2017] [Revised: 02/22/2017] [Accepted: 02/22/2017] [Indexed: 01/19/2023]
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14
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Baskaran P, Hyvönen R, Berglund SL, Clemmensen KE, Ågren GI, Lindahl BD, Manzoni S. Modelling the influence of ectomycorrhizal decomposition on plant nutrition and soil carbon sequestration in boreal forest ecosystems. THE NEW PHYTOLOGIST 2017; 213:1452-1465. [PMID: 27748949 DOI: 10.1111/nph.14213] [Citation(s) in RCA: 36] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/12/2016] [Accepted: 08/15/2016] [Indexed: 05/26/2023]
Abstract
Tree growth in boreal forests is limited by nitrogen (N) availability. Most boreal forest trees form symbiotic associations with ectomycorrhizal (ECM) fungi, which improve the uptake of inorganic N and also have the capacity to decompose soil organic matter (SOM) and to mobilize organic N ('ECM decomposition'). To study the effects of 'ECM decomposition' on ecosystem carbon (C) and N balances, we performed a sensitivity analysis on a model of C and N flows between plants, SOM, saprotrophs, ECM fungi, and inorganic N stores. The analysis indicates that C and N balances were sensitive to model parameters regulating ECM biomass and decomposition. Under low N availability, the optimal C allocation to ECM fungi, above which the symbiosis switches from mutualism to parasitism, increases with increasing relative involvement of ECM fungi in SOM decomposition. Under low N conditions, increased ECM organic N mining promotes tree growth but decreases soil C storage, leading to a negative correlation between C stores above- and below-ground. The interplay between plant production and soil C storage is sensitive to the partitioning of decomposition between ECM fungi and saprotrophs. Better understanding of interactions between functional guilds of soil fungi may significantly improve predictions of ecosystem responses to environmental change.
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Affiliation(s)
- Preetisri Baskaran
- Department of Ecology, Swedish University of Agricultural Sciences, Box 7044, Uppsala, SE-750 07, Sweden
| | - Riitta Hyvönen
- Department of Ecology, Swedish University of Agricultural Sciences, Box 7044, Uppsala, SE-750 07, Sweden
| | - S Linnea Berglund
- Department of Ecology, Swedish University of Agricultural Sciences, Box 7044, Uppsala, SE-750 07, Sweden
| | - Karina E Clemmensen
- Department of Mycology and Plant Pathology, Swedish University of Agricultural Sciences, Box 7026, Uppsala, SE-750 07, Sweden
| | - Göran I Ågren
- Department of Ecology, Swedish University of Agricultural Sciences, Box 7044, Uppsala, SE-750 07, Sweden
| | - Björn D Lindahl
- Department of Soil and Environment, Swedish University of Agricultural Sciences, Box 7014, Uppsala, SE-750 07, Sweden
| | - Stefano Manzoni
- Department of Physical Geography, Stockholm University, Stockholm, SE-106 91, Sweden
- Bolin Centre for Climate Research, Stockholm University, Stockholm, SE-106 91, Sweden
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Weemstra M, Mommer L, Visser EJW, van Ruijven J, Kuyper TW, Mohren GMJ, Sterck FJ. Towards a multidimensional root trait framework: a tree root review. THE NEW PHYTOLOGIST 2016; 211:1159-69. [PMID: 27174359 DOI: 10.1111/nph.14003] [Citation(s) in RCA: 238] [Impact Index Per Article: 29.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/23/2016] [Accepted: 04/06/2016] [Indexed: 05/03/2023]
Abstract
Contents 1159 I. 1159 II. 1161 III. 1164 IV. 1166 1167 References 1167 SUMMARY: The search for a root economics spectrum (RES) has been sparked by recent interest in trait-based plant ecology. By analogy with the one-dimensional leaf economics spectrum (LES), fine-root traits are hypothesised to match leaf traits which are coordinated along one axis from resource acquisitive to conservative traits. However, our literature review and meta-level analysis reveal no consistent evidence of an RES mirroring an LES. Instead the RES appears to be multidimensional. We discuss three fundamental differences contributing to the discrepancy between these spectra. First, root traits are simultaneously constrained by various environmental drivers not necessarily related to resource uptake. Second, above- and belowground traits cannot be considered analogues, because they function differently and might not be related to resource uptake in a similar manner. Third, mycorrhizal interactions may offset selection for an RES. Understanding and explaining the belowground mechanisms and trade-offs that drive variation in root traits, resource acquisition and plant performance across species, thus requires a fundamentally different approach than applied aboveground. We therefore call for studies that can functionally incorporate the root traits involved in resource uptake, the complex soil environment and the various soil resource uptake mechanisms - particularly the mycorrhizal pathway - in a multidimensional root trait framework.
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Affiliation(s)
- Monique Weemstra
- Forest Ecology and Forest Management group, Wageningen University, 6700 AA, Wageningen, the Netherlands
- Plant Ecology and Nature Conservation group, Wageningen University, 6700 AA, Wageningen, the Netherlands
| | - Liesje Mommer
- Plant Ecology and Nature Conservation group, Wageningen University, 6700 AA, Wageningen, the Netherlands
| | - Eric J W Visser
- Department of Experimental Plant Ecology, Institute for Water and Wetland Research, Radboud University Nijmegen, 6500 GL, Nijmegen, the Netherlands
| | - Jasper van Ruijven
- Plant Ecology and Nature Conservation group, Wageningen University, 6700 AA, Wageningen, the Netherlands
| | - Thomas W Kuyper
- Department of Soil Quality, Wageningen University, 6700 AA, Wageningen, the Netherlands
| | - Godefridus M J Mohren
- Forest Ecology and Forest Management group, Wageningen University, 6700 AA, Wageningen, the Netherlands
| | - Frank J Sterck
- Forest Ecology and Forest Management group, Wageningen University, 6700 AA, Wageningen, the Netherlands
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16
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Hupperts SF, Karst J, Pritsch K, Landhäusser SM. Host phenology and potential saprotrophism of ectomycorrhizal fungi in the boreal forest. Funct Ecol 2016. [DOI: 10.1111/1365-2435.12695] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Stefan F. Hupperts
- Department of Renewable Resources University of Alberta Edmonton AlbertaT6G 2H1 Canada
| | - Justine Karst
- Department of Renewable Resources University of Alberta Edmonton AlbertaT6G 2H1 Canada
| | - Karin Pritsch
- Helmholtz Zentrum München GmbH German Research Center for Environmental Health Institute of Biochemical Plant Pathology Ingolstaedter Landstr. 1 85764 Neuherberg Germany
| | - Simon M. Landhäusser
- Department of Renewable Resources University of Alberta Edmonton AlbertaT6G 2H1 Canada
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17
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Hendricks JJ, Mitchell RJ, Kuehn KA, Pecot SD. Ectomycorrhizal fungal mycelia turnover in a longleaf pine forest. THE NEW PHYTOLOGIST 2016; 209:1693-1704. [PMID: 26537020 DOI: 10.1111/nph.13729] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/28/2015] [Accepted: 09/25/2015] [Indexed: 06/05/2023]
Abstract
Elucidation of the patterns and controls of carbon (C) flow and nitrogen (N) cycling in forests has been hindered by a poor understanding of ectomycorrhizal fungal mycelia (EFM) dynamics. In this study, EFM standing biomass (based on soil ergosterol concentrations), production (based on ergosterol accrual in ingrowth cores), and turnover rate (the quotient of annual production and average standing biomass estimates) were assessed in a 25-yr-old longleaf pine (Pinus palustris) plantation where C flow was manipulated by foliar scorching and N fertilization for 5 yr before study initiation. In the controls, EFM standing biomass was 30 ± 7 g m(-2) , production was 279 ± 63 g m(-2) yr(-1) , and turnover rate was 10 ± 3 times yr(-1) . The scorched × fertilized treatment had significantly higher EFM standing biomass (38 ± 8 g m(-2) ), significantly lower production (205 ± 28 g m(-2) yr(-1) ), and a trend of decreased turnover rate (6 ± 1 times yr(-1) ). The EFM turnover estimates, which are among the first reported for natural systems, indicate that EFM are a dynamic component of ecosystems, and that conventional assessments have probably underestimated the role of EFM in C flow and nutrient cycling.
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Affiliation(s)
- Joseph J Hendricks
- Department of Biology, University of West Georgia, 1601 Maple Street, Carrollton, GA, 30118, USA
| | - Robert J Mitchell
- Joseph W. Jones Ecological Research Center at Ichauway, 3988 Jones Center Drive, Newton, GA, 39870, USA
| | - Kevin A Kuehn
- Department of Biological Sciences, The University of Southern Mississippi, 118 College Drive, Hattiesburg, MS, 39406, USA
| | - Stephen D Pecot
- Joseph W. Jones Ecological Research Center at Ichauway, 3988 Jones Center Drive, Newton, GA, 39870, USA
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Chagnon PL, Rineau F, Kaiser C. Mycorrhizas across scales: a journey between genomics, global patterns of biodiversity and biogeochemistry. THE NEW PHYTOLOGIST 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] [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
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19
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The Importance of Ectomycorrhizal Networks for Nutrient Retention and Carbon Sequestration in Forest Ecosystems. ACTA ACUST UNITED AC 2015. [DOI: 10.1007/978-94-017-7395-9_3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/08/2023]
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20
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Dickie IA, Alexander I, Lennon S, Öpik M, Selosse MA, van der Heijden MGA, Martin FM. Evolving insights to understanding mycorrhizas. THE NEW PHYTOLOGIST 2015; 205:1369-1374. [PMID: 25645714 DOI: 10.1111/nph.13290] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Affiliation(s)
- Ian A Dickie
- Bio-Protection Research Centre, Lincoln University, PO Box 85084, Lincoln, 7647, New Zealand
| | - Ian Alexander
- School of Biological Sciences, University of Aberdeen, Cruickshank Building, Aberdeen, AB24 3UU, UK
| | - Sarah Lennon
- New Phytologist Central Office, Lancaster University, Bailrigg House, Lancaster, LA1 4YE, UK
| | - Maarja Öpik
- Department of Botany, Institute of Ecology and Earth Sciences, University of Tartu, 40 Lai St, 51005, Tartu, Estonia
| | - Marc-André Selosse
- Département Systématique et Evolution, Muséum national d'Histoire naturelle, UMR 7205 ISYEB CP 50 45 rue Buffon, Paris, 75005, France
| | | | - Francis M Martin
- Lab of Excellence ARBRE, INRA, UMR 1136 INRA-Université de Lorraine 'Interactions Arbres/Micro-organismes', 54280, Champenoux, France
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