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Altshuler I, Raymond-Bouchard I, Magnuson E, Tremblay J, Greer CW, Whyte LG. Unique high Arctic methane metabolizing community revealed through in situ 13CH 4-DNA-SIP enrichment in concert with genome binning. Sci Rep 2022; 12:1160. [PMID: 35064149 PMCID: PMC8782848 DOI: 10.1038/s41598-021-04486-z] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2021] [Accepted: 11/30/2021] [Indexed: 12/15/2022] Open
Abstract
Greenhouse gas (GHG) emissions from Arctic permafrost soils create a positive feedback loop of climate warming and further GHG emissions. Active methane uptake in these soils can reduce the impact of GHG on future Arctic warming potential. Aerobic methane oxidizers are thought to be responsible for this apparent methane sink, though Arctic representatives of these organisms have resisted culturing efforts. Here, we first used in situ gas flux measurements and qPCR to identify relative methane sink hotspots at a high Arctic cytosol site, we then labeled the active microbiome in situ using DNA Stable Isotope Probing (SIP) with heavy 13CH4 (at 100 ppm and 1000 ppm). This was followed by amplicon and metagenome sequencing to identify active organisms involved in CH4 metabolism in these high Arctic cryosols. Sequencing of 13C-labeled pmoA genes demonstrated that type II methanotrophs (Methylocapsa) were overall the dominant active methane oxidizers in these mineral cryosols, while type I methanotrophs (Methylomarinovum) were only detected in the 100 ppm SIP treatment. From the SIP-13C-labeled DNA, we retrieved nine high to intermediate quality metagenome-assembled genomes (MAGs) belonging to the Proteobacteria, Gemmatimonadetes, and Chloroflexi, with three of these MAGs containing genes associated with methanotrophy. A novel Chloroflexi MAG contained a mmoX gene along with other methane oxidation pathway genes, identifying it as a potential uncultured methane oxidizer. This MAG also contained genes for copper import, synthesis of biopolymers, mercury detoxification, and ammonia uptake, indicating that this bacterium is strongly adapted to conditions in active layer permafrost and providing new insights into methane biogeochemical cycling. In addition, Betaproteobacterial MAGs were also identified as potential cross-feeders with methanotrophs in these Arctic cryosols. Overall, in situ SIP labeling combined with metagenomics and genome binning demonstrated to be a useful tool for discovering and characterizing novel organisms related to specific microbial functions or biogeochemical cycles of interest. Our findings reveal a unique and active Arctic cryosol microbial community potentially involved in CH4 cycling.
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Affiliation(s)
- Ianina Altshuler
- Department of Natural Resource Sciences, McGill University, 21,111 Lakeshore Rd., Ste. Anne de Bellevue, QC, H9X 3V9, Canada.
- Department of Animal and Aquacultural Sciences, Norwegian University of Life Sciences NMBU, Universitetstunet 3, 1430, Ås, Norway.
| | - Isabelle Raymond-Bouchard
- Department of Natural Resource Sciences, McGill University, 21,111 Lakeshore Rd., Ste. Anne de Bellevue, QC, H9X 3V9, Canada
| | - Elisse Magnuson
- Department of Natural Resource Sciences, McGill University, 21,111 Lakeshore Rd., Ste. Anne de Bellevue, QC, H9X 3V9, Canada
| | - Julien Tremblay
- Energy, Mining and Environment Research Centre, National Research Council of Canada, 6100 Royalmount Ave., Montreal, QC, H4P 2R2, Canada
| | - Charles W Greer
- Department of Natural Resource Sciences, McGill University, 21,111 Lakeshore Rd., Ste. Anne de Bellevue, QC, H9X 3V9, Canada
- Energy, Mining and Environment Research Centre, National Research Council of Canada, 6100 Royalmount Ave., Montreal, QC, H4P 2R2, Canada
| | - Lyle G Whyte
- Department of Natural Resource Sciences, McGill University, 21,111 Lakeshore Rd., Ste. Anne de Bellevue, QC, H9X 3V9, Canada
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Schützenmeister K, Meurer KHE, Gronwald M, Hartmann ABD, Gansert D, Jungkunst HF. N 2O emissions from plants are reduced under photosynthetic activity. PLANT-ENVIRONMENT INTERACTIONS (HOBOKEN, N.J.) 2020; 1:48-56. [PMID: 37284131 PMCID: PMC10168041 DOI: 10.1002/pei3.10015] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/07/2020] [Revised: 04/02/2020] [Accepted: 05/10/2020] [Indexed: 06/08/2023]
Abstract
New plant functions in the exchange of greenhouse gases between ecosystems and atmosphere have recently been discovered. We tested whether photosynthetic activity has an effect on N2O emission rates from incubated plant-soil systems.Two laboratory experiments were performed. One to unravel possible effect of photosynthetic activity on the net N2O ecosystem exchange for two species (beech and ash saplings). The other to account for possible effects from rhizosphere and aboveground plant parts separately (ash sapling only).Total N2O emissions from both plant and plant-soil systems were significantly lower under light than in darkness (31%-65%). The photosynthetic effect only applied to the aboveground plant parts.Underlying processes have now to be unraveled to improve our understanding of ecosystem functioning. This will improve modeling and budgeting of greenhouse gas exchanges between ecosystems and the atmosphere.
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Affiliation(s)
- Klaus Schützenmeister
- iES LandauInstitute for Environmental SciencesUniversity Koblenz‐LandauLandauGermany
| | - Katharina H. E. Meurer
- iES LandauInstitute for Environmental SciencesUniversity Koblenz‐LandauLandauGermany
- Department of Soil & EnvironmentSwedish University of Agricultural Sciences‐SLUUppsalaSweden
| | | | | | - Dirk Gansert
- Plant Ecology and Ecosystem ResearchGeorg‐August University GöttingenGöttingenGermany
| | - Hermann F. Jungkunst
- iES LandauInstitute for Environmental SciencesUniversity Koblenz‐LandauLandauGermany
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Altshuler I, Ronholm J, Layton A, Onstott TC, W. Greer C, Whyte LG. Denitrifiers, nitrogen-fixing bacteria and N2O soil gas flux in high Arctic ice-wedge polygon cryosols. FEMS Microbiol Ecol 2019; 95:5481522. [DOI: 10.1093/femsec/fiz049] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2018] [Accepted: 04/24/2019] [Indexed: 11/13/2022] Open
Affiliation(s)
- Ianina Altshuler
- Department of Natural Resource Sciences, Faculty of Agricultural and Environmental Sciences, Macdonald Campus, McGill University, 21,111 Lakeshore Rd, Ste Anne-de-Bellevue, QC, H9X 3V9, Canada
| | - Jennifer Ronholm
- Department of Food Science and Agricultural Chemistry, Faculty of Agricultural and Environmental Sciences, Macdonald Campus, McGill University, 21,111 Lakeshore Ste Anne-de-Bellevue, QC, H9X 3V9, Canada
- Department of Animal Science, Faculty of Agricultural and Environmental Sciences, Macdonald Campus, McGill University, 21,111 Lakeshore Ste Anne-de-Bellevue, QC, H9X 3V9, Canada
| | - Alice Layton
- Center for Environmental Biotechnology, University of Tennessee – Knoxville, 676 Dabney-Buehler Hall, 1416 Circle Drive, TN 37996-1605, USA
| | - Tullis C Onstott
- Geomicrobiology, Geosciences, Princeton University, Princeton, NJ 08544, USA
| | - Charles W. Greer
- Department of Natural Resource Sciences, Faculty of Agricultural and Environmental Sciences, Macdonald Campus, McGill University, 21,111 Lakeshore Rd, Ste Anne-de-Bellevue, QC, H9X 3V9, Canada
- National Research Council of Canada, 6100 Royalmount Avenue, Montreal, QC, H4P 2R2, Canada
| | - Lyle G Whyte
- Department of Natural Resource Sciences, Faculty of Agricultural and Environmental Sciences, Macdonald Campus, McGill University, 21,111 Lakeshore Rd, Ste Anne-de-Bellevue, QC, H9X 3V9, Canada
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Cui Q, Song C, Wang X, Shi F, Yu X, Tan W. Effects of warming on N 2O fluxes in a boreal peatland of Permafrost region, Northeast China. THE SCIENCE OF THE TOTAL ENVIRONMENT 2018; 616-617:427-434. [PMID: 29127796 DOI: 10.1016/j.scitotenv.2017.10.246] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/10/2017] [Revised: 10/23/2017] [Accepted: 10/24/2017] [Indexed: 06/07/2023]
Abstract
Climate warming is expected to increasingly influence boreal peatlands and alter their greenhouse gases emissions. However, the effects of warming on N2O fluxes and the N2O budgets were ignored in boreal peatlands. Therefore, in a boreal peatland of permafrost zone in Northeast China, a simulated warming experiment was conducted to investigate the effects of warming on N2O fluxes in Betula. Fruticosa community (B. Fruticosa) and Ledum. palustre community (L. palustre) during the growing seasons from 2013 to 2015. Results showed that warming treatment increased air temperature at 1.5m aboveground and soil temperature at 5cm depth by 0.6°C and 2°C, respectively. The average seasonal N2O fluxes ranged from 6.62 to 9.34μgm-2h-1 in the warming plot and ranged from 0.41 to 4.55μgm-2h-1 in the control plots. Warming treatment increased N2O fluxes by 147% and transformed the boreal peatlands from a N2O sink to a source. The primary driving factors for N2O fluxes were soil temperature and active layer depth, whereas soil moisture showed a weak correlation with N2O fluxes. The results indicated that warming promoted N2O fluxes by increasing soil temperature and active layer depth in a boreal peatland of permafrost zone in Northeast China. Moreover, elevated N2O fluxes persisted in this region will potentially drive a noncarbon feedback to ongoing climate change.
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Affiliation(s)
- Qian Cui
- Key Laboratory of Wetland Ecology and Environment, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102, PR China; University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Changchun Song
- Key Laboratory of Wetland Ecology and Environment, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102, PR China.
| | - Xianwei Wang
- Key Laboratory of Wetland Ecology and Environment, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102, PR China
| | - Fuxi Shi
- Key Laboratory of Wetland Ecology and Environment, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102, PR China
| | - Xueyang Yu
- Key Laboratory of Wetland Ecology and Environment, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102, PR China; University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Wenwen Tan
- Key Laboratory of Wetland Ecology and Environment, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102, PR China
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Bao T, Zhu R, Wang P, Ye W, Ma D, Xu H. Potential effects of ultraviolet radiation reduction on tundra nitrous oxide and methane fluxes in maritime Antarctica. Sci Rep 2018; 8:3716. [PMID: 29487308 PMCID: PMC5829069 DOI: 10.1038/s41598-018-21881-1] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2017] [Accepted: 02/13/2018] [Indexed: 11/08/2022] Open
Abstract
Stratospheric ozone has begun to recover in Antarctica since the implementation of the Montreal Protocol. However, the effects of ultraviolet (UV) radiation on tundra greenhouse gas fluxes are rarely reported for Polar Regions. In the present study, tundra N2O and CH4 fluxes were measured under the simulated reduction of UV radiation in maritime Antarctica over the last three-year summers. Significantly enhanced N2O and CH4 emissions occurred at tundra sites under the simulated reduction of UV radiation. Compared with the ambient normal UV level, a 20% reduction in UV radiation increased tundra emissions by an average of 8 μg N2O m-2 h-1 and 93 μg CH4 m-2 h-1, whereas a 50% reduction in UV radiation increased their emissions by an average of 17 μg N2O m-2 h-1 and 128 μg CH4 m-2 h-1. No statistically significant correlation (P > 0.05) was found between N2O and CH4 fluxes and soil temperature, soil moisture, total carbon, total nitrogen, NO3--N and NH4+-N contents. Our results confirmed that UV radiation intensity is an important factor affecting tundra N2O and CH4 fluxes in maritime Antarctica. Exclusion of the effects of reduced UV radiation might underestimate their budgets in Polar Regions with the recovery of stratospheric ozone.
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Affiliation(s)
- Tao Bao
- Anhui Province Key Laboratory of Polar Environment and Global Change, School of Earth and Space Sciences, University of Science and Technology of China, Hefei, 230036, China
| | - Renbin Zhu
- Anhui Province Key Laboratory of Polar Environment and Global Change, School of Earth and Space Sciences, University of Science and Technology of China, Hefei, 230036, China.
| | - Pei Wang
- Anhui Province Key Laboratory of Polar Environment and Global Change, School of Earth and Space Sciences, University of Science and Technology of China, Hefei, 230036, China
| | - Wenjuan Ye
- Anhui Province Key Laboratory of Polar Environment and Global Change, School of Earth and Space Sciences, University of Science and Technology of China, Hefei, 230036, China
| | - Dawei Ma
- Anhui Province Key Laboratory of Polar Environment and Global Change, School of Earth and Space Sciences, University of Science and Technology of China, Hefei, 230036, China
| | - Hua Xu
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, 210008, China
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