Functional Enzyme-Based Approach for Linking Microbial Community Functions with Biogeochemical Process Kinetics
[2];
[3]
- School of Environmental Studies, China University of Geosciences, Wuhan 430074, China
- Pacific Northwest National Laboratory, Richland, Washington 99354, United States
- Pacific Northwest National Laboratory, Richland, Washington 99354, United States; School of Environmental Science and Engineering, Southern University of Science and Technology, Shenzhen 518055, China
The kinetics of biogeochemical processes in natural and engineered environmental systems are typically described using Monod-type or modified Monod-type models. These models rely on biomass as surrogates for functional enzymes in microbial community that catalyze biogeochemical reactions. A major challenge to apply such models is the difficulty to quantitatively measure functional biomass for constraining and validating the models. On the other hand, omics-based approaches have been increasingly used to characterize microbial community structure, functions, and metabolites. Here we proposed an enzyme-based model that can incorporate omics-data to link microbial community functions with biogeochemical process kinetics. The model treats enzymes as time-variable catalysts for biogeochemical reactions and applies biogeochemical reaction network to incorporate intermediate metabolites. The sequences of genes and proteins from metagenomes, as well as those from the UniProt database, were used for targeted enzyme quantification and to provide insights into the dynamic linkage among functional genes, enzymes, and metabolites that are necessary to be incorporated in the model. The application of the model was demonstrated using denitrification as an example by comparing model-simulated with measured functional enzymes, genes, denitrification substrates and intermediates
- Research Organization:
- Pacific Northwest National Lab. (PNNL), Richland, WA (United States)
- Sponsoring Organization:
- USDOE Office of Science (SC), Biological and Environmental Research (BER)
- DOE Contract Number:
- AC05-76RL01830
- OSTI ID:
- 1411903
- Report Number(s):
- PNNL-SA-127385; KP1702030
- Journal Information:
- Environmental Science and Technology, Vol. 51, Issue 20; ISSN 0013-936X
- Publisher:
- American Chemical Society (ACS)
- Country of Publication:
- United States
- Language:
- English
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