Representing methane emissions from wet tropical forest soils using microbial functional groups constrained by soil diffusivity
Abstract
Tropical ecosystems contribute significantly to global emissions of methane (CH4), and landscape topography influences the rate of CH4 emissions from wet tropical forest soils. However, extreme events such as drought can alter normal topographic patterns of emissions. Here we explain the dynamics of CH4 emissions during normal and drought conditions across a catena in the Luquillo Experimental Forest, Puerto Rico. Valley soils served as the major source of CH4 emissions in a normal precipitation year (2016), but drought recovery in 2015 resulted in dramatic pulses in CH4 emissions from all topographic positions. Geochemical parameters including (i) dissolved organic carbon (C), acetate, and soil pH and (ii) hydrological parameters like soil moisture and oxygen (O2) concentrations varied across the catena. During the drought, soil moisture decreased in the slope and ridge, and O2 concentrations increased in the valley. We simulated the dynamics of CH4 emissions with the Microbial Model for Methane Dynamics-Dual Arrhenius and Michaelis–Menten (M3D-DAMM), which couples a microbial functional group CH4 model with a diffusivity module for solute and gas transport within soil microsites. Contrasting patterns of soil moisture, O2, acetate, and associated changes in soil pH with topography regulated simulated CH4 emissions, but emissions were also altered by rate-limited diffusion inmore »
- Authors:
-
[2];
[6];
[7]
- Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Emory Univ., Atlanta, GA (United States)
- San Diego State Univ., CA (United States)
- Univ. of Hamburg (Germany). Institute of Plant Science and Microbiology
- Univ. of California, Berkeley, CA (United States); Macalester College, St. Paul, MN (United States)
- Univ. of California, Berkeley, CA (United States)
- Univ. of New Hampshire, Durham, NH (United States)
- Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
- Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Boston Univ., MA (United States)
- Los Alamos National Lab. (LANL), Los Alamos, NM (United States)
- Publication Date:
- Research Org.:
- Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States)
- Sponsoring Org.:
- National Science Foundation (NSF); USDOE Office of Science (SC), Biological and Environmental Research (BER); USDA
- OSTI Identifier:
- 1786288
- Alternate Identifier(s):
- OSTI ID: 1830105
- Grant/Contract Number:
- AC05-00OR22725; DEB-1457805; EAR-0722476
- Resource Type:
- Accepted Manuscript
- Journal Name:
- Biogeosciences (Online)
- Additional Journal Information:
- Journal Name: Biogeosciences (Online); Journal Volume: 18; Journal Issue: 5; Journal ID: ISSN 1726-4189
- Publisher:
- Copernicus Publications, EGU
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 54 ENVIRONMENTAL SCIENCES
Citation Formats
Sihi, Debjani, Xu, Xiaofeng, Salazar Ortiz, Mónica, O'Connell, Christine S., Silver, Whendee L., López-Lloreda, Carla, Brenner, Julia M., Quinn, Ryan K., Phillips, Jana R., Newman, Brent D., and Mayes, Melanie A. Representing methane emissions from wet tropical forest soils using microbial functional groups constrained by soil diffusivity. United States: N. p., 2021.
Web. doi:10.5194/bg-18-1769-2021.
Sihi, Debjani, Xu, Xiaofeng, Salazar Ortiz, Mónica, O'Connell, Christine S., Silver, Whendee L., López-Lloreda, Carla, Brenner, Julia M., Quinn, Ryan K., Phillips, Jana R., Newman, Brent D., & Mayes, Melanie A. Representing methane emissions from wet tropical forest soils using microbial functional groups constrained by soil diffusivity. United States. https://doi.org/10.5194/bg-18-1769-2021
Sihi, Debjani, Xu, Xiaofeng, Salazar Ortiz, Mónica, O'Connell, Christine S., Silver, Whendee L., López-Lloreda, Carla, Brenner, Julia M., Quinn, Ryan K., Phillips, Jana R., Newman, Brent D., and Mayes, Melanie A. Mon .
"Representing methane emissions from wet tropical forest soils using microbial functional groups constrained by soil diffusivity". United States. https://doi.org/10.5194/bg-18-1769-2021. https://www.osti.gov/servlets/purl/1786288.
@article{osti_1786288,
title = {Representing methane emissions from wet tropical forest soils using microbial functional groups constrained by soil diffusivity},
author = {Sihi, Debjani and Xu, Xiaofeng and Salazar Ortiz, Mónica and O'Connell, Christine S. and Silver, Whendee L. and López-Lloreda, Carla and Brenner, Julia M. and Quinn, Ryan K. and Phillips, Jana R. and Newman, Brent D. and Mayes, Melanie A.},
abstractNote = {Tropical ecosystems contribute significantly to global emissions of methane (CH4), and landscape topography influences the rate of CH4 emissions from wet tropical forest soils. However, extreme events such as drought can alter normal topographic patterns of emissions. Here we explain the dynamics of CH4 emissions during normal and drought conditions across a catena in the Luquillo Experimental Forest, Puerto Rico. Valley soils served as the major source of CH4 emissions in a normal precipitation year (2016), but drought recovery in 2015 resulted in dramatic pulses in CH4 emissions from all topographic positions. Geochemical parameters including (i) dissolved organic carbon (C), acetate, and soil pH and (ii) hydrological parameters like soil moisture and oxygen (O2) concentrations varied across the catena. During the drought, soil moisture decreased in the slope and ridge, and O2 concentrations increased in the valley. We simulated the dynamics of CH4 emissions with the Microbial Model for Methane Dynamics-Dual Arrhenius and Michaelis–Menten (M3D-DAMM), which couples a microbial functional group CH4 model with a diffusivity module for solute and gas transport within soil microsites. Contrasting patterns of soil moisture, O2, acetate, and associated changes in soil pH with topography regulated simulated CH4 emissions, but emissions were also altered by rate-limited diffusion in soil microsites. Changes in simulated available substrate for CH4 production (acetate, CO2, and H2) and oxidation (O2 and CH4) increased the predicted biomass of methanotrophs during the drought event and methanogens during drought recovery, which in turn affected net emissions of CH4. A variance-based sensitivity analysis suggested that parameters related to aceticlastic methanogenesis and methanotrophy were most critical to simulate net CH4 emissions. This study enhanced the predictive capability for CH4 emissions associated with complex topography and drought in wet tropical forest soils.},
doi = {10.5194/bg-18-1769-2021},
journal = {Biogeosciences (Online)},
number = 5,
volume = 18,
place = {United States},
year = {Mon Mar 15 00:00:00 EDT 2021},
month = {Mon Mar 15 00:00:00 EDT 2021}
}
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Works referenced in this record:
Phosphorus sorption on tropical soils with relevance to Earth system model needs
journal, January 2019
- Brenner, Julia; Porter, Wesley; Phillips, Jana R.
- Soil Research, Vol. 57, Issue 1
Anaerobic conversion of carbon dioxide to methane, acetate and propionate on washed rice roots
journal, October 1999
- Conrad, Ralf; Klose, Melanie
- FEMS Microbiology Ecology, Vol. 30, Issue 2
Drought drives rapid shifts in tropical rainforest soil biogeochemistry and greenhouse gas emissions
journal, April 2018
- O’Connell, Christine S.; Ruan, Leilei; Silver, Whendee L.
- Nature Communications, Vol. 9, Issue 1
Optimal control of gene expression for fast proteome adaptation to environmental change
journal, December 2013
- Pavlov, M. Y.; Ehrenberg, M.
- Proceedings of the National Academy of Sciences, Vol. 110, Issue 51
Modeling anaerobic soil organic carbon decomposition in Arctic polygon tundra: insights into soil geochemical influences on carbon mineralization
journal, January 2019
- Zheng, Jianqiu; Thornton, Peter E.; Painter, Scott L.
- Biogeosciences, Vol. 16, Issue 3
Vertical partitioning of CO2 production within a temperate forest soil
journal, June 2006
- Davidson, Eric A.; Savage, Kathleen E.; Trumbore, Susan E.
- Global Change Biology, Vol. 12, Issue 6
Separate effects of flooding and anaerobiosis on soil greenhouse gas emissions and redox sensitive biogeochemistry: Separate flooding effects on soil fluxes
journal, April 2014
- McNicol, Gavin; Silver, Whendee L.
- Journal of Geophysical Research: Biogeosciences, Vol. 119, Issue 4
Land-Use Change and Biogeochemical Controls of Methane Fluxes in Soils of Eastern Amazonia
journal, January 2000
- Verchot, Louis V.; Davidson, Eric A.; Cattânio, J. Henrique
- Ecosystems, Vol. 3, Issue 1
Suppression of methanogenesis by dissimilatory Fe(III)-reducing bacteria in tropical rain forest soils: implications for ecosystem methane flux: METHANOGENESIS REGULATED BY DISSIMILATORY FE(III)-REDUCTION
journal, November 2007
- Teh, Yit Arn; Dubinsky, Eric A.; Silver, Whendee L.
- Global Change Biology, Vol. 14, Issue 2
Unexpected results of a pilot throughfall exclusion experiment on soil emissions of CO 2 , CH 4 , N 2 O, and NO in eastern Amazonia
journal, September 2002
- Cattânio, José; Davidson, Eric; Nepstad, Daniel
- Biology and Fertility of Soils, Vol. 36, Issue 2
Mechanistic Modeling of Microtopographic Impacts on CO 2 and CH 4 Fluxes in an Alaskan Tundra Ecosystem Using the CLM‐Microbe Model
journal, December 2019
- Wang, Yihui; Yuan, Fengming; Yuan, Fenghui
- Journal of Advances in Modeling Earth Systems, Vol. 11, Issue 12
Methane emissions from upland forest soils and vegetation
journal, April 2008
- Megonigal, J. P.; Guenther, A. B.
- Tree Physiology, Vol. 28, Issue 4
Reducing conditions, reactive metals, and their interactions can explain spatial patterns of surface soil carbon in a humid tropical forest
journal, July 2015
- Hall, Steven J.; Silver, Whendee L.
- Biogeochemistry, Vol. 125, Issue 2
Temporal Dynamics in Soil Oxygen and Greenhouse Gases in Two Humid Tropical Forests
journal, December 2010
- Liptzin, Daniel; Silver, Whendee L.; Detto, Matteo
- Ecosystems, Vol. 14, Issue 2
Geomorphology, disturbance, and the soil and vegetation of two subtropical wet steepland watersheds of Puerto Rico
journal, September 1995
- Scatena, F. N.; Lugo, Ariel E.
- Geomorphology, Vol. 13, Issue 1-4
Simultaneous numerical representation of soil microsite production and consumption of carbon dioxide, methane, and nitrous oxide using probability distribution functions
journal, November 2019
- Sihi, Debjani; Davidson, Eric A.; Savage, Kathleen E.
- Global Change Biology, Vol. 26, Issue 1
Soil microorganisms as controllers of atmospheric trace gases (H2, CO, CH4, OCS, N2O, and NO).
journal, January 1996
- Conrad, R.
- Microbiological reviews, Vol. 60, Issue 4
Archaea catalyze iron-dependent anaerobic oxidation of methane
journal, October 2016
- Ettwig, Katharina F.; Zhu, Baoli; Speth, Daan
- Proceedings of the National Academy of Sciences, Vol. 113, Issue 45
Oxygen effects on methane production and oxidation in humid tropical forest soils
journal, August 2005
- Teh, Yit Arn; Silver, Whendee L.; Conrad, Mark E.
- Global Change Biology, Vol. 11, Issue 8
Comparison of different chamber techniques for measuring soil CO2 efflux
journal, June 2004
- Pumpanen, Jukka; Kolari, Pasi; Ilvesniemi, Hannu
- Agricultural and Forest Meteorology, Vol. 123, Issue 3-4
Redox Fluctuations Control the Coupled Cycling of Iron and Carbon in Tropical Forest Soils
journal, November 2018
- Bhattacharyya, Amrita; Campbell, Ashley N.; Tfaily, Malak M.
- Environmental Science & Technology, Vol. 52, Issue 24
Biogeochemical modeling of CO 2 and CH 4 production in anoxic Arctic
soil microcosms
journal, January 2016
- Tang, Guoping; Zheng, Jianqiu; Xu, Xiaofeng
- Biogeosciences, Vol. 13, Issue 17
Strong spatial variability in trace gasdynamics following experimental drought in a humid tropical forest: DROUGHT IMPACTS ON TROPICAL FORESTS
journal, July 2012
- Wood, Tana E.; Silver, Whendee L.
- Global Biogeochemical Cycles, Vol. 26, Issue 3
Merging a mechanistic enzymatic model of soil heterotrophic respiration into an ecosystem model in two AmeriFlux sites of northeastern USA
journal, April 2018
- Sihi, Debjani; Davidson, Eric A.; Chen, Min
- Agricultural and Forest Meteorology, Vol. 252
The Dual Arrhenius and Michaelis-Menten kinetics model for decomposition of soil organic matter at hourly to seasonal time scales
journal, October 2011
- Davidson, Eric A.; Samanta, Sudeep; Caramori, Samantha S.
- Global Change Biology, Vol. 18, Issue 1
Modeling the Production of and Competition for Hydrogen in a Dechlorinating Culture
journal, August 1998
- Fennell, Donna E.; Gossett, James M.
- Environmental Science & Technology, Vol. 32, Issue 16
Iron oxidation stimulates organic matter decomposition in humid tropical forest soils
journal, July 2013
- Hall, Steven J.; Silver, Whendee L.
- Global Change Biology, Vol. 19, Issue 9
Controls on Soil Carbon Stocks in El Yunque National Forest, Puerto Rico
journal, January 2015
- Johnson, A. H.; Xing, Hao Xing; Scatena, F. N.
- Soil Science Society of America Journal, Vol. 79, Issue 1
Hot Spots and Hot Moments of Soil Moisture Explain Fluctuations in Iron and Carbon Cycling in a Humid Tropical Forest Soil
journal, November 2018
- Barcellos, Diego; O’Connell, Christine; Silver, Whendee
- Soil Systems, Vol. 2, Issue 4
Simulation of methanogenesis in the mathematical model ecosys
journal, July 1998
- Grant, R. F.
- Soil Biology and Biochemistry, Vol. 30, Issue 7
A microbial functional group-based module for simulating methane production and consumption: Application to an incubated permafrost soil: A MICROBIAL FUNCTIONAL GROUP-BASED METHANE MODULE
journal, July 2015
- Xu, Xiaofeng; Elias, Dwayne A.; Graham, David E.
- Journal of Geophysical Research: Biogeosciences, Vol. 120, Issue 7
Disturbance and long-term patterns of rainfall and throughfall nutrient fluxes in a subtropical wet forest in Puerto Rico
journal, February 2007
- Heartsill-Scalley, T.; Scatena, F. N.; Estrada, C.
- Journal of Hydrology, Vol. 333, Issue 2-4
Global-Scale Similarities in Nitrogen Release Patterns During Long-Term Decomposition
journal, January 2007
- Parton, W.; Silver, W. L.; Burke, I. C.
- Science, Vol. 315, Issue 5810
Effects of an experimental drought on soil emissions of carbon dioxide, methane, nitrous oxide, and nitric oxide in a moist tropical forest
journal, May 2004
- Davidson, Eric A.; Ishida, Francoise Yoko; Nepstad, Daniel C.
- Global Change Biology, Vol. 10, Issue 5
Separating methane production and consumption with a field-based isotope pool dilution technique: METHANE ISOTOPE POOL DILUTION
journal, July 2002
- von Fischer, Joseph C.; Hedin, Lars O.
- Global Biogeochemical Cycles, Vol. 16, Issue 3
Bringing function to structure: Root–soil interactions shaping phosphatase activity throughout a soil profile in Puerto Rico
journal, January 2021
- Cabugao, Kristine Grace; Yaffar, Daniela; Stenson, Nathan
- Ecology and Evolution, Vol. 11, Issue 3
Effects of an experimental drought and recovery on soil emissions of carbon dioxide, methane, nitrous oxide, and nitric oxide in a moist tropical forest
journal, September 2008
- Davidson, Eric A.; Nepstad, Daniel C.; Ishida, FranÇOise Yoko
- Global Change Biology
Effects of soil structure destruction on methane production and carbon partitioning between methanogenic pathways in tropical rain forest soils
journal, January 2006
- Teh, Yit Arn; Silver, Whendee L.
- Journal of Geophysical Research, Vol. 111, Issue G1
The Mechanism of Phosphate Fixation by Iron Oxides1
journal, January 1975
- Parfitt, Roger L.; Atkinson, Roger J.; Smart, Roger St. C.
- Soil Science Society of America Journal, Vol. 39, Issue 5
Methane production and methane consumption: a review of processes underlying wetland methane fluxes
journal, April 1998
- Segers, Reinoud
- Biogeochemistry, Vol. 41, Issue 1, p. 23-51
Atmospheric Methane Consumption by Forest Soils and Extracted Bacteria at Different pH Values
journal, July 1998
- Amaral, John A.; Ren, Tie; Knowles, Roger
- Applied and Environmental Microbiology, Vol. 64, Issue 7
Microbial ecology of fermentative hydrogen producing bioprocesses: useful insights for driving the ecosystem function
journal, February 2017
- Cabrol, Lea; Marone, Antonella; Tapia-Venegas, Estela
- FEMS Microbiology Reviews, Vol. 41, Issue 2
Attribution of spatial and temporal variations in terrestrial methane flux over North America
journal, January 2010
- Xu, X. F.; Tian, H. Q.; Zhang, C.
- Biogeosciences, Vol. 7, Issue 11
Biological Nitrogen Fixation in Two Tropical Forests: Ecosystem-Level Patterns and Effects of Nitrogen Fertilization
journal, October 2009
- Cusack, Daniela F.; Silver, Whendee; McDowell, William H.
- Ecosystems, Vol. 12, Issue 8
Temperature effects on soil methane production: an explanation for observed variability
journal, December 1999
- van Hulzen, J. B.; Segers, R.; van Bodegom, P. M.
- Soil Biology and Biochemistry, Vol. 31, Issue 14
Large rainfall changes consistently projected over substantial areas of tropical land
journal, September 2015
- Chadwick, Robin; Good, Peter; Martin, Gill
- Nature Climate Change, Vol. 6, Issue 2
Connecting methane fluxes to vegetation cover and water table fluctuations at microsite level: A modeling study: CONNECTING CH
journal, May 2003
- Kettunen, Anu
- Global Biogeochemical Cycles, Vol. 17, Issue 2
Soil oxygen availability and biogeochemistry along rainfall and topographic gradients in upland wet tropical forest soils
journal, March 1999
- Silver, Whendee L.; Lugo, A. E.; Keller, M.
- Biogeochemistry, Vol. 44, Issue 3
Complex coupled metabolic and prokaryotic community responses to increasing temperatures in anaerobic marine sediments: critical temperatures and substrate changes
journal, July 2015
- Roussel, Erwan G.; Cragg, Barry A.; Webster, Gordon
- FEMS Microbiology Ecology, Vol. 91, Issue 8
Forests and Climate Change: Forcings, Feedbacks, and the Climate Benefits of Forests
journal, June 2008
- Bonan, G. B.
- Science, Vol. 320, Issue 5882
Modeling methane emissions from rice paddies
journal, June 1995
- Cao, Mingkui; Dent, J. B.; Heal, O. W.
- Global Biogeochemical Cycles, Vol. 9, Issue 2
The effect of soil drying on humus decomposition and nitrogen availability
journal, September 1958
- Birch, H. F.
- Plant and Soil, Vol. 10, Issue 1
Tropical drying trends in global warming models and observations
journal, April 2006
- Neelin, J. D.; Munnich, M.; Su, H.
- Proceedings of the National Academy of Sciences, Vol. 103, Issue 16
Kinetics of Acetate Metabolism during Sludge Digestion
journal, January 1966
- Smith, Paul H.; Mah, Robert A.
- Applied Microbiology, Vol. 14, Issue 3
A new method to study simultaneous methane oxidation and methane production in soils
journal, December 1998
- Andersen, B. L.; Bidoglio, G.; Leip, A.
- Global Biogeochemical Cycles, Vol. 12, Issue 4
Gas diffusivity and production of CO 2 in deep soils of the eastern Amazon
journal, January 1995
- Davidson, Eric A.; Trumbore, Susan E.
- Tellus B: Chemical and Physical Meteorology, Vol. 47, Issue 5
A history of research on the link between (micro)aggregates, soil biota, and soil organic matter dynamics
journal, September 2004
- Six, J.; Bossuyt, H.; Degryze, S.
- Soil and Tillage Research, Vol. 79, Issue 1
Anaerobic oxidation of methane in tropical and boreal soils: Ecological significance in terrestrial methane cycling: ANAEROBIC OXIDATION OF METHANE IN SOILS
journal, June 2012
- Blazewicz, Steven J.; Petersen, Dorthe G.; Waldrop, Mark P.
- Journal of Geophysical Research: Biogeosciences, Vol. 117, Issue G2
Rate of Bacterial Mortality in Aquatic Environments
journal, January 1985
- Servais, Pierre; Billen, Gilles; Rego, Jose Vives
- Applied and Environmental Microbiology, Vol. 49, Issue 6
Drivers and patterns of iron redox cycling from surface to bedrock in a deep tropical forest soil: a new conceptual model
journal, September 2016
- Hall, Steven J.; Liptzin, Daniel; Buss, Heather L.
- Biogeochemistry, Vol. 130, Issue 1-2
Colloid Mobilization During Soil Iron Redox Oscillations
journal, September 2006
- Thompson, Aaron; Chadwick, Oliver A.; Boman, Sarah
- Environmental Science & Technology, Vol. 40, Issue 18
Adaptation of Methanogenic Communities to the Cofermentation of Cattle Excreta and Olive Mill Wastes at 37°C and 55°C
journal, July 2010
- Goberna, Marta; Gadermaier, Maria; García, Carlos
- Applied and Environmental Microbiology, Vol. 76, Issue 19
Reviews and syntheses: Four decades of modeling methane cycling in terrestrial ecosystems
journal, January 2016
- Xu, Xiaofeng; Yuan, Fengming; Hanson, Paul J.
- Biogeosciences, Vol. 13, Issue 12
A review of the molecular diffusivities of H2O, CO2, CH4, CO, O3, SO2, NH3, N2O, NO, and NO2 in air, O2 and N2 near STP
journal, March 1998
- Massman, W. J.
- Atmospheric Environment, Vol. 32, Issue 6
Meteorological data from El Verde Field Station: NADP Tower
dataset, January 2021
- Ramírez, Alonso
- Environmental Data Initiative
Meteorological data from El Verde Field Station: NADP Tower
dataset, January 2020
- Ramírez, Alonso
- Environmental Data Initiative
Meteorological data from El Verde Field Station: NADP Tower
dataset, January 2022
- Ramírez, Alonso
- Environmental Data Initiative
Meteorological data from El Verde Field Station: NADP Tower
dataset, January 2022
- Ramírez, Alonso
- Environmental Data Initiative
Meteorological data from El Verde Field Station: NADP Tower
dataset, January 2017
- RamIrez, Alonso
- Environmental Data Initiative
Meteorological data from El Verde Field Station: NADP Tower
dataset, January 2017
- RamIrez, Alonso
- Environmental Data Initiative