Microbial Activity in the Subsurface Contributes to Greenhouse Gas Fluxes

Natural carbon dioxide production from deep subsurface soils contributes significantly to emissions, even in a semiarid floodplain.

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Left: Rifle, Colorado, floodplain vadose zone profile. Middle: Instrumentation for monitoring pore water and gas profiles down to the 3.5-m depth. Right: Respiration profiles sustained by organic carbon carried in infiltration water.

The Science

Most carbon dioxide emissions to the atmosphere come from plant roots and microbes that are found in the top 1 meter (approximately 3 feet) of the soil surface. However, deeper down, a large inventory of carbon supports an abundance of microorganisms that also release carbon dioxide. In this study, scientists built vertical profiles of carbon dioxide concentrations measured from the soil surface down to the water table in a semiarid floodplain. They determined microbes well below the rooting depth and above the water table contribute a significant amount of carbon dioxide to the total atmospheric emissions from the floodplain.

The Impact

Approximately 17% of the surface carbon dioxide flux originates from depths between 2 and 3.5 meters (approximately 7 to 11 feet). These contributions are not typically accounted for in Earth system models. Adding these contributions would allow scientists to better understand how the Earth system works.


While carbon dioxide fluxes from microbial activity within shallow soils (< 1-m (3 ft) depth) are well studied, relatively little is known about carbon dioxide fluxes from microbes at greater depths. To determine the respiration rate of these microbes, scientists compared, measured, and calculated carbon dioxide fluxes from the floodplain of the U.S. Department of Energy Old Rifle site along the Colorado River. They measured carbon dioxide production rates of the floodplain sediments, and using the corresponding data, they determined the relative importance of deeper vadose zone respiration. Their calculations yielded fluxes generally consistent with measurements taken at the soil surface. They calculated that the carbon dioxide production from between 2- to 3.5-m (7- to 11-ft) deep contributed 17% of the total floodplain respiration. The carbon dioxide rates were larger than some parts of the shallower vadose zone and underlying aquifer. The team’s results correlate with microbial respiration rates from laboratory incubation tests using the sediments from the site. How do the microbes survive in the deeper subsurface? The deeper unsaturated zone maintains beneficial levels of water and air and is annually resupplied with organic carbon from snowmelt-driven recharge and by water table decline. Further, the deeper soil environment is buffered from destructive extremes of temperature and salinity. These favorable conditions support deeper microbial respiration throughout the year.


BER PM Contact
David Lesmes, SC-23.1, 301-903-2977

PI Contact
Susan Hubbard
Lawrence Berkeley National Laboratory


This work was supported by the U.S. Department of Energy, Office of Science, Office of Biological and Environmental Research, Subsurface Biogeochemical Research program.


T.K. Tokunaga, Y. Kim, M.E. Conrad, M. Bill, C. Hobson, K.H. Williams, W. Dong, J. Wan, M.J. Robbins, P.E. Long, B. Faybishenko, J.N. Christensen, and S.S. Hubbard, “Deep vadose zone respiration contributions to carbon dioxide fluxes from a semiarid floodplainExternal link.” Vadose Zone Journal 15(7) (2016). [DOI: 10.2136/vzj2016.02.0014]

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Program: BER, CESD

Performer/Facility: DOE Laboratory

Last modified: 9/7/2017 7:27:46 AM