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Seppey CVW, Cabrol L, Thalasso F, Gandois L, Lavergne C, Martinez-Cruz K, Sepulveda-Jauregui A, Aguilar-Muñoz P, Astorga-España MS, Chamy R, Dellagnezze BM, Etchebehere C, Fochesatto GJ, Gerardo-Nieto O, Mansilla A, Murray A, Sweetlove M, Tananaev N, Teisserenc R, Tveit AT, Van de Putte A, Svenning MM, Barret M. Biogeography of microbial communities in high-latitude ecosystems: Contrasting drivers for methanogens, methanotrophs and global prokaryotes. Environ Microbiol 2023; 25:3364-3386. [PMID: 37897125 DOI: 10.1111/1462-2920.16526] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2023] [Accepted: 10/02/2023] [Indexed: 10/29/2023]
Abstract
Methane-cycling is becoming more important in high-latitude ecosystems as global warming makes permafrost organic carbon increasingly available. We explored 387 samples from three high-latitudes regions (Siberia, Alaska and Patagonia) focusing on mineral/organic soils (wetlands, peatlands, forest), lake/pond sediment and water. Physicochemical, climatic and geographic variables were integrated with 16S rDNA amplicon sequences to determine the structure of the overall microbial communities and of specific methanogenic and methanotrophic guilds. Physicochemistry (especially pH) explained the largest proportion of variation in guild composition, confirming species sorting (i.e., environmental filtering) as a key mechanism in microbial assembly. Geographic distance impacted more strongly beta diversity for (i) methanogens and methanotrophs than the overall prokaryotes and, (ii) the sediment habitat, suggesting that dispersal limitation contributed to shape the communities of methane-cycling microorganisms. Bioindicator taxa characterising different ecological niches (i.e., specific combinations of geographic, climatic and physicochemical variables) were identified, highlighting the importance of Methanoregula as generalist methanogens. Methylocystis and Methylocapsa were key methanotrophs in low pH niches while Methylobacter and Methylomonadaceae in neutral environments. This work gives insight into the present and projected distribution of methane-cycling microbes at high latitudes under climate change predictions, which is crucial for constraining their impact on greenhouse gas budgets.
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Affiliation(s)
- Christophe V W Seppey
- Department of Arctic and Marine Biology, UiT The Arctic University of Norway, Tromsø, Norway
- Institute of Environmental Science and Geography, University of Potsdam, Potsdam-Golm, Germany
| | - Léa Cabrol
- Aix-Marseille University, CNRS, IRD, Mediterranean Institute of Oceanography (MIO) UM 110, Marseille, France
- Millennium Institute Biodiversity of Antarctic and Subantarctic Ecosystems (BASE), Santiago, Chile
| | - Frederic Thalasso
- Centro de Investigacíon y de Estudios Avanzados del Instituto Politecnico Nacional (Cinvestav-IPN), Departamento de Biotecnología y Bioingeniería, México, Mexico
| | - Laure Gandois
- Laboratoire Écologie Fonctionnelle et Environnement, Université de Toulouse, CNRS, Toulouse, France
| | - Céline Lavergne
- HUB AMBIENTAL UPLA, Laboratory of Aquatic Environmental Research, Universidad de Playa Ancha, Valparaíso, Chile
- Escuela de Ingeniería Bioquímica, Pontificia Universidad Católica de Valparaíso, Valparaíso, Chile
| | - Karla Martinez-Cruz
- Departamento de Ciencias y Recursos Naturales, Universidad de Magallanes, Punta Arenas, Chile
- Environmental Physics Group, Limnological Institute, University of Konstanz, Konstanz, Germany
| | | | - Polette Aguilar-Muñoz
- HUB AMBIENTAL UPLA, Laboratory of Aquatic Environmental Research, Universidad de Playa Ancha, Valparaíso, Chile
- Escuela de Ingeniería Bioquímica, Pontificia Universidad Católica de Valparaíso, Valparaíso, Chile
| | | | - Rolando Chamy
- Escuela de Ingeniería Bioquímica, Pontificia Universidad Católica de Valparaíso, Valparaíso, Chile
| | - Bruna Martins Dellagnezze
- Microbial Ecology Laboratory, Department of Microbial Biochemistry and Genomic, Biological Research Institute "Clemente Estable", Montevideo, Uruguay
| | - Claudia Etchebehere
- Microbial Ecology Laboratory, Department of Microbial Biochemistry and Genomic, Biological Research Institute "Clemente Estable", Montevideo, Uruguay
| | - Gilberto J Fochesatto
- Department of Atmospheric Sciences, University of Alaska Fairbanks, Fairbanks, Alaska, USA
| | - Oscar Gerardo-Nieto
- Centro de Investigacíon y de Estudios Avanzados del Instituto Politecnico Nacional (Cinvestav-IPN), Departamento de Biotecnología y Bioingeniería, México, Mexico
| | - Andrés Mansilla
- Departamento de Ciencias y Recursos Naturales, Universidad de Magallanes, Punta Arenas, Chile
| | - Alison Murray
- Division of Earth and Ecosystem Sciences, Desert Research Institute, Reno, Nevada, USA
| | - Maxime Sweetlove
- Royal Belgian Institute for Natural Sciences, OD-Nature, Brussels, Belgium
| | - Nikita Tananaev
- Melnikov Permafrost Institute, Russian Academy of Sciences, Yakutsk, Russia
- Institute of Natural Sciences, North-Eastern Federal University, Yakutsk, Russia
| | - Roman Teisserenc
- Laboratoire Écologie Fonctionnelle et Environnement, Université de Toulouse, CNRS, Toulouse, France
| | - Alexander T Tveit
- Department of Arctic and Marine Biology, UiT The Arctic University of Norway, Tromsø, Norway
| | - Anton Van de Putte
- Royal Belgian Institute for Natural Sciences, OD-Nature, Brussels, Belgium
| | - Mette M Svenning
- Department of Arctic and Marine Biology, UiT The Arctic University of Norway, Tromsø, Norway
| | - Maialen Barret
- Laboratoire Écologie Fonctionnelle et Environnement, Université de Toulouse, CNRS, Toulouse, France
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Gao W, Yang X, Zhang Y, Zhao T, Shi B, Yang T, Ma J, Xu W, Wu Y, Sun W. Suppression of methane uptake by precipitation pulses and long-term nitrogen addition in a semi-arid meadow steppe in northeast China. FRONTIERS IN PLANT SCIENCE 2023; 13:1071511. [PMID: 36726673 PMCID: PMC9884686 DOI: 10.3389/fpls.2022.1071511] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/16/2022] [Accepted: 12/30/2022] [Indexed: 06/18/2023]
Abstract
In the context of global change, the frequency of precipitation pulses is expected to decrease while nitrogen (N) addition is expected to increase, which will have a crucial effect on soil C cycling processes as well as methane (CH4) fluxes. The interactive effects of precipitation pulses and N addition on ecosystem CH4 fluxes, however, remain largely unknown in grassland. In this study, a series of precipitation pulses (0, 5, 10, 20, and 50 mm) and long-term N addition (0 and 10 g N m-2 yr-1, 10 years) was simulated to investigate their effects on CH4 fluxes in a semi-arid grassland. The results showed that large precipitation pulses (10 mm, 20 mm, and 50 mm) had a negative pulsing effect on CH4 fluxes and relatively decreased the peak CH4 fluxes by 203-362% compared with 0 mm precipitation pulse. The large precipitation pulses significantly inhibited CH4 absorption and decreased the cumulative CH4 fluxes by 68-88%, but small precipitation pulses (5 mm) did not significantly alter it. For the first time, we found that precipitation pulse size increased cumulative CH4 fluxes quadratically in both control and N addition treatments. The increased soil moisture caused by precipitation pulses inhibited CH4 absorption by suppressing CH4 uptake and promoting CH4 release. Nitrogen addition significantly decreased the absorption of CH4 by increasing NH4 +-N content and NO3 --N content and increased the production of CH4 by increasing aboveground biomass, ultimately suppressing CH4 uptake. Surprisingly, precipitation pulses and N addition did not interact to affect CH4 uptake because precipitation pulses and N addition had an offset effect on pH and affected CH4 fluxes through different pathways. In summary, precipitation pulses and N addition were able to suppress the absorption of CH4 from the atmosphere by soil, reducing the CH4 sink capacity of grassland ecosystems.
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Affiliation(s)
- Weifeng Gao
- Institute of Grassland Science, Key Laboratory of Vegetation Ecology of the Ministry of Education, Jilin Songnen Grassland Ecosystem National Observation and Research Station, Northeast Normal University, Changchun, Jilin, China
| | - Xu Yang
- Institute of Grassland Science, Key Laboratory of Vegetation Ecology of the Ministry of Education, Jilin Songnen Grassland Ecosystem National Observation and Research Station, Northeast Normal University, Changchun, Jilin, China
| | - Yicong Zhang
- Institute of Grassland Science, Key Laboratory of Vegetation Ecology of the Ministry of Education, Jilin Songnen Grassland Ecosystem National Observation and Research Station, Northeast Normal University, Changchun, Jilin, China
| | - Tianhang Zhao
- Institute of Grassland Science, Key Laboratory of Vegetation Ecology of the Ministry of Education, Jilin Songnen Grassland Ecosystem National Observation and Research Station, Northeast Normal University, Changchun, Jilin, China
| | - Baoku Shi
- Institute of Grassland Science, Key Laboratory of Vegetation Ecology of the Ministry of Education, Jilin Songnen Grassland Ecosystem National Observation and Research Station, Northeast Normal University, Changchun, Jilin, China
| | - Tianxue Yang
- Institute of Grassland Science, Key Laboratory of Vegetation Ecology of the Ministry of Education, Jilin Songnen Grassland Ecosystem National Observation and Research Station, Northeast Normal University, Changchun, Jilin, China
- State Environmental Protection Key Laboratory of Wetland Ecology and Vegetation Restoration, Northeast Normal University, Changchun, Jilin, China
| | - Jianying Ma
- Key Laboratory of Geographical Processes and Ecological Security in Changbai Mountains, Ministry of Education, School of Geographical Sciences, Northeast Normal University, Changchun, Jilin, China
| | - Wanling Xu
- Institute of Grassland Science, Key Laboratory of Vegetation Ecology of the Ministry of Education, Jilin Songnen Grassland Ecosystem National Observation and Research Station, Northeast Normal University, Changchun, Jilin, China
- College of Geography and Ocean Sciences, Yanbian University, Hunchun, China
| | - Yining Wu
- College of Wildlife and Protected Area, Northeast Forestry University, Harbin, China
| | - Wei Sun
- Institute of Grassland Science, Key Laboratory of Vegetation Ecology of the Ministry of Education, Jilin Songnen Grassland Ecosystem National Observation and Research Station, Northeast Normal University, Changchun, Jilin, China
- State Environmental Protection Key Laboratory of Wetland Ecology and Vegetation Restoration, Northeast Normal University, Changchun, Jilin, China
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Bollinger E, Zubrod JP, Lai FY, Ahrens L, Filker S, Lorke A, Bundschuh M. Antibiotics as a silent driver of climate change? A case study investigating methane production in freshwater sediments. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2021; 228:113025. [PMID: 34847437 DOI: 10.1016/j.ecoenv.2021.113025] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/17/2021] [Revised: 11/10/2021] [Accepted: 11/21/2021] [Indexed: 06/13/2023]
Abstract
Methane (CH4) is the second most important greenhouse gas after carbon dioxide (CO2) and is inter alia produced in natural freshwater ecosystems. Given the rise in CH4 emissions from natural sources, researchers are investigating environmental factors and climate change feedbacks to explain this increment. Despite being omnipresent in freshwaters, knowledge on the influence of chemical stressors of anthropogenic origin (e.g., antibiotics) on methanogenesis is lacking. To address this knowledge gap, we incubated freshwater sediment under anaerobic conditions with a mixture of five antibiotics at four levels (from 0 to 5000 µg/L) for 42 days. Weekly measurements of CH4 and CO2 in the headspace, as well as their compound-specific δ13C, showed that the CH4 production rate was increased by up to 94% at 5000 µg/L and up to 29% at field-relevant concentrations (i.e., 50 µg/L). Metabarcoding of the archaeal and eubacterial 16S rRNA gene showed that effects of antibiotics on bacterial community level (i.e., species composition) may partially explain the observed differences in CH4 production rates. Despite the complications of transferring experimental CH4 production rates to realistic field conditions, the study indicated that chemical stressors contribute to the emissions of greenhouse gases by affecting the methanogenesis in freshwaters.
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Affiliation(s)
- E Bollinger
- iES Landau, Institute for Environmental Sciences, University of Koblenz-Landau, Germany; Eusserthal Ecosystem Research Station, University of Koblenz-Landau, Germany
| | - J P Zubrod
- iES Landau, Institute for Environmental Sciences, University of Koblenz-Landau, Germany; Eusserthal Ecosystem Research Station, University of Koblenz-Landau, Germany
| | - F Y Lai
- Department of Aquatic Sciences and Assessment, Swedish University of Agricultural Sciences (SLU), Sweden
| | - L Ahrens
- Department of Aquatic Sciences and Assessment, Swedish University of Agricultural Sciences (SLU), Sweden
| | - S Filker
- Department of Molecular Ecology, University of Technology Kaiserslautern, Germany
| | - A Lorke
- iES Landau, Institute for Environmental Sciences, University of Koblenz-Landau, Germany
| | - M Bundschuh
- iES Landau, Institute for Environmental Sciences, University of Koblenz-Landau, Germany; Eusserthal Ecosystem Research Station, University of Koblenz-Landau, Germany; Department of Aquatic Sciences and Assessment, Swedish University of Agricultural Sciences (SLU), Sweden.
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Integrating Decomposers, Methane-Cycling Microbes and Ecosystem Carbon Fluxes Along a Peatland Successional Gradient in a Land Uplift Region. Ecosystems 2021. [DOI: 10.1007/s10021-021-00713-w] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
AbstractPeatlands are carbon dioxide (CO2) sinks that, in parallel, release methane (CH4). The peatland carbon (C) balance depends on the interplay of decomposer and CH4-cycling microbes, vegetation, and environmental conditions. These interactions are susceptible to the changes that occur along a successional gradient from vascular plant-dominated systems to Sphagnum moss-dominated systems. Changes similar to this succession are predicted to occur from climate change. Here, we investigated how microbial and plant communities are interlinked with each other and with ecosystem C cycling along a successional gradient on a boreal land uplift coast. The gradient ranged from shoreline to meadows and fens, and further to bogs. Potential microbial activity (aerobic CO2 production; CH4 production and oxidation) and biomass were greatest in the early successional meadows, although their communities of aerobic decomposers (fungi, actinobacteria), methanogens, and methanotrophs did not differ from the older fens. Instead, the functional microbial communities shifted at the fen–bog transition concurrent with a sudden decrease in C fluxes. The successional patterns of decomposer versus CH4-cycling communities diverged at the bog stage, indicating strong but distinct microbial responses to Sphagnum dominance and acidity. We highlight young meadows as dynamic sites with the greatest microbial potential for C release. These hot spots of C turnover with dense sedge cover may represent a sensitive bottleneck in succession, which is necessary for eventual long-term peat accumulation. The distinctive microbes in bogs could serve as indicators of the C sink function in restoration measures that aim to stabilize the C in the peat.
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Hinzke T, Li G, Tanneberger F, Seeber E, Aggenbach C, Lange J, Kozub Ł, Knorr K, Kreyling J, Kotowski W. Potentially peat‐forming biomass of fen sedges increases with increasing nutrient levels. Funct Ecol 2021. [DOI: 10.1111/1365-2435.13803] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Tjorven Hinzke
- Department of Experimental Plant Ecology Institute of Botany and Landscape Ecology University of GreifswaldPartner in the Greifswald Mire Centre Greifswald Germany
| | - Guixiang Li
- Department of Ecology and Environmental Conservation Institute of Environmental Biology Faculty of Biology University of Warsaw Warsaw Poland
| | - Franziska Tanneberger
- Department of Experimental Plant Ecology Institute of Botany and Landscape Ecology University of GreifswaldPartner in the Greifswald Mire Centre Greifswald Germany
| | - Elke Seeber
- Department of Experimental Plant Ecology Institute of Botany and Landscape Ecology University of GreifswaldPartner in the Greifswald Mire Centre Greifswald Germany
| | - Camiel Aggenbach
- Ecosystem Management Research Group Department of Biology University of Antwerp Antwerp Belgium
- KWR Water Research Institute Nieuwegein The Netherlands
| | - Jelena Lange
- Department of Experimental Plant Ecology Institute of Botany and Landscape Ecology University of GreifswaldPartner in the Greifswald Mire Centre Greifswald Germany
- Department of Physical Geography and Geoecology, Faculty of Science Charles University Prague Czech Republic
| | - Łukasz Kozub
- Department of Ecology and Environmental Conservation Institute of Environmental Biology Faculty of Biology University of Warsaw Warsaw Poland
| | - Klaus‐Holger Knorr
- Ecohydrology & Biogeochemistry Group Institute of Landscape Ecology University of Münster Münster Germany
| | - Juergen Kreyling
- Department of Experimental Plant Ecology Institute of Botany and Landscape Ecology University of GreifswaldPartner in the Greifswald Mire Centre Greifswald Germany
| | - Wiktor Kotowski
- Department of Ecology and Environmental Conservation Institute of Environmental Biology Faculty of Biology University of Warsaw Warsaw Poland
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Kitson E, Bell NGA. The Response of Microbial Communities to Peatland Drainage and Rewetting. A Review. Front Microbiol 2020; 11:582812. [PMID: 33193221 PMCID: PMC7658402 DOI: 10.3389/fmicb.2020.582812] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2020] [Accepted: 09/30/2020] [Indexed: 11/13/2022] Open
Abstract
Peatlands are significant global carbon stores and play an important role in mediating the flux of greenhouse gasses into the atmosphere. During the 20th century substantial areas of northern peatlands were drained to repurpose the land for industrial or agricultural use. Drained peatlands have dysfunctional microbial communities, which can lead to net carbon emissions. Rewetting of drained peatlands is therefore an environmental priority, yet our understanding of the effects of peatland drainage and rewetting on microbial communities is still incomplete. Here we summarize the last decade of research into the response of the wider microbial community, methane-cycling microorganisms, and micro-fauna to drainage and rewetting in fens and bogs in Europe and North America. Emphasis is placed on current research methodologies and their limitations. We propose targets for future work including: accounting for timescale of drainage and rewetting events; better vertical and lateral coverage of samples across a peatland; the integration of proteomic and metabolomic datasets into functional community analysis; the use of RNA sequencing to differentiate the active community from legacy DNA; and further study into the response of the viral and micro-faunal communities to peatland drainage and rewetting. This review should benefit researchers embarking on studies in wetland microbiology and non-microbiologists working on peatland drainage and rewetting in general.
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Affiliation(s)
- Ezra Kitson
- EaSTCHEM School of Chemistry, University of Edinburgh, Edinburgh, United Kingdom
| | - Nicholle G A Bell
- EaSTCHEM School of Chemistry, University of Edinburgh, Edinburgh, United Kingdom
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L. Bräuer S, Basiliko N, M. P. Siljanen H, H. Zinder S. Methanogenic archaea in peatlands. FEMS Microbiol Lett 2020; 367:5928548. [DOI: 10.1093/femsle/fnaa172] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2020] [Accepted: 10/16/2020] [Indexed: 12/22/2022] Open
Abstract
ABSTRACT
Methane emission feedbacks in wetlands are predicted to influence global climate under climate change and other anthropogenic stressors. Herein, we review the taxonomy and physiological ecology of the microorganisms responsible for methane production in peatlands. Common in peat soils are five of the eight described orders of methanogens spanning three phyla (Euryarchaeota, Halobacterota and Thermoplasmatota). The phylogenetic affiliation of sequences found in peat suggest that members of the thus-far-uncultivated group Candidatus Bathyarchaeota (representing a fourth phylum) may be involved in methane cycling, either anaerobic oxidation of methane and/or methanogenesis, as at least a few organisms within this group contain the essential gene, mcrA, according to metagenomic data. Methanogens in peatlands are notoriously challenging to enrich and isolate; thus, much remains unknown about their physiology and how methanogen communities will respond to environmental changes. Consistent patterns of changes in methanogen communities have been reported across studies in permafrost peatland thaw where the resulting degraded feature is thermokarst. However much remains to be understood regarding methanogen community feedbacks to altered hydrology and warming in other contexts, enhanced atmospheric pollution (N, S and metals) loading and direct anthropogenic disturbances to peatlands like drainage, horticultural peat extraction, forestry and agriculture, as well as post-disturbance reclamation.
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Affiliation(s)
- Suzanna L. Bräuer
- Appalachian State University, Department of Biology, ASU Box 32027, 572 Rivers Street, Boone, NC 28608-2027 USA
| | - Nathan Basiliko
- Laurentian University, Department of Biology and the Vale Living with Lakes Centre, 935 Ramsey Lake Road, Sudbury, ON P3E 2C6, Canada
| | - Henri M. P. Siljanen
- Eastern Finland University, Department of Environmental and Biological Sciences, Biogeochemistry Research Group, Snellmania Room 4042, Yliopistonranta 1, Kuopio, 70210, Finland
| | - Stephen H. Zinder
- Cornell University, Department of Microbiology, 272 Wing Hall, Ithaca, NY 14850, USA
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