Microbial functional genes commonly respond to elevated carbon dioxide

Zhili He, Ye Deng, Meiying Xu, Juan Li, Junyi Liang, Jinbo Xiong, Hao Yu, Bo Wu, Liyou Wu, Kai Xue, Shengjing Shi, Yolima Carrillo, Joy D. Van Nostrand, Sarah E. Hobbie, Peter B. Reich, Christopher W. Schadt, Angela D. Kent, Elise Pendall, Matthew Wallenstein, Yiqi LuoQingyun Yan, Jizhong Zhou

Research output: Contribution to journalArticlepeer-review

10 Scopus citations


Atmospheric CO2 concentration is increasing, largely due to anthropogenic activities. Previous studies of individual free-air CO2 enrichment (FACE) experimental sites have shown significant impacts of elevated CO2 (eCO2) on soil microbial communities; however, no common microbial response patterns have yet emerged, challenging our ability to predict ecosystem functioning and sustainability in the future eCO2 environment. Here we analyzed 66 soil microbial communities from five FACE sites, and showed common microbial response patterns to eCO2, especially for key functional genes involved in carbon and nitrogen fixation (e.g., pcc/acc for carbon fixation, nifH for nitrogen fixation), carbon decomposition (e.g., amyA and pulA for labile carbon decomposition, mnp and lcc for recalcitrant carbon decomposition), and greenhouse gas emissions (e.g., mcrA for methane production, norB for nitrous oxide production) across five FACE sites. Also, the relative abundance of those key genes was generally increased and directionally associated with increased biomass, soil carbon decomposition, and soil moisture. In addition, a further literature survey of more disparate FACE experimental sites indicated increased biomass, soil carbon decay, nitrogen fixation, methane and nitrous oxide emissions, plant and soil carbon and nitrogen under eCO2. A conceptual framework was developed to link commonly responsive functional genes with ecosystem processes, such as pcc/acc vs. soil carbon storage, amyA/pulA/mnp/lcc vs. soil carbon decomposition, and nifH vs. nitrogen availability, suggesting that such common responses of microbial functional genes may have the potential to predict ecosystem functioning and sustainability in the future eCO2 environment.

Original languageEnglish (US)
Article number106068
JournalEnvironment international
StatePublished - Nov 2020

Bibliographical note

Funding Information:
This work was supported by the US Department of Agriculture (Project 2007-35319-18305) through the NSF-USDA Microbial Observatories Program, by Sun Yat-sen University (38000-18821105) and the National Science Foundation of China ( 31770539 , 91951207 ), by the US Department of Energy, Biological Systems Research on the Role of Microbial Communities in Carbon Cycling Program (DE-SC0004601), by the Collaborative Innovation Center for Regional Environmental Quality. BioCON was supported by the US National Science Foundation (NSF) Long-Term Ecological Research ( DEB-0080382 , DEB-0620652 , and DEB-1234162 ), Biocomplexity Coupled Biogeochemical Cycles (DEB-0322057), Long-Term Research in Environmental Biology (DEB-0716587, DEB-1242531) and Ecosystem Sciences (NSF DEB-1120064) Programs; as well as the U.S. Department of Energy Program for Ecosystem Research (DE-FG02-96ER62291) and National Institute for Climatic Change Research (DE-FC02-06ER64158). PHACE support was provided by the USDA -Agricultural Research Service and CSREES (2008-35107-18655), the US Department of Energy's Office of Science (BER), and by the National Science Foundation (DEB# 1021559).

Publisher Copyright:
© 2020 The Author(s)


  • Common/specific response
  • Elevated carbon dioxide
  • Functional gene
  • Global change
  • Soil microbial community


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