May 27, 2020
Journal Article

Comparing Ecosystem and Soil Respiration: Review and Key Challenges of Tower-Based and Soil Measurements

Aline Jaimes
Liisa Kulmala
Josep Barba
Greg Barron-Gafford
Benjamin Bond-Lamberty
Alejandro Cueva
Michael Bahn
Paul Hanson
G Wohlfahrt
Jukka Pumpanen
Rodrigo Vargas
Russell Scott


The net ecosystem exchange (NEE) is the difference between ecosystem CO2 assimilation and CO2 losses to the atmosphere. Ecosystem respiration (Reco), the efflux of CO2 from the ecosystem to the atmosphere, includes the soil-to-atmosphere carbon flux (i.e., soil respiration; Rsoil) and aboveground plant respiration. Therefore, Rsoil is a fraction of Reco and by definition has to be smaller than Reco at annual, seasonal and daily scales. However, several studies estimating Reco with the eddy covariance technique and measuring Rsoil within the footprint of the tower have reported higher Rsoil than Reco at different time scales. Here, we compare four different and contrasting ecosystems (from forest to grasslands, and from boreal to semiarid) to study whether, and under what conditions, measurements of Reco are lower than Rsoil. In general, both fluxes showed similar temporal patterns, but Reco was not consistently higher than Rsoil from daily to annual scales across sites. We identified several issues that apply for measuring NEE and measuring/upscaling Rsoil that could result in an underestimation of Reco and/or an overestimation of Rsoil. These issues are discussed based on (a) nighttime measurements of NEE, (b) Rsoil measurements, and (c) the interpretation of the functional relationships of these fluxes with temperature (i.e., Q10). We highlight that there is still a need for better integration of Rsoil with eddy covariance measurements to address challenges related to spatial and temporal variability of Reco and Rsoil.

Revised: May 27, 2020 | Published: February 15, 2018


Barba J., A. Cueva, M. Bahn, G. Barron-Gafford, B. Bond-Lamberty, P.J. Hanson, and A. Jaimes, et al. 2018. "Comparing Ecosystem and Soil Respiration: Review and Key Challenges of Tower-Based and Soil Measurements." Agricultural and Forest Meteorology 249. PNNL-SA-124283. doi:10.1016/j.agrformet.2017.10.028