Functional Enzyme-Based Approach for Linking Microbial Community Functions with Biogeochemical Process Kinetics

Li, Minjing1; Qian, Wei-jun2; Gao, Yuqian2; Shi, Liang1; Liu, Chongxuan2,3

2017-10-17

10.1021/acs.est.7b03158

ENVIRONMENTAL SCIENCE & TECHNOLOGY   影响因子和分区

0013-936X

1520-5851

The kinetics of biogeochemical processes in natural and engineered environmental systems is typically described using Monod-type or modified Monod-type models. These models rely on biomass as surrogates for functional enzymes in microbial communities that catalyze biogeochemical reactions. A major challenge of applying such models is the difficulty of quantitatively measuring functional biomass for the constraining and validation of the models. However, omics-based approaches have been increasingly used to characterize microbial community structure, functions, and metabolites. Here, we propose 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 a 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 required in the model. The application of the model was demonstrated using denitrification, as an example, by comparing model simulations with measured functional enzymes, genes, denitrification substrates, and intermediates.

SCI ; EI

英语

NI期刊

通讯

Southern University of Science and Technology[G01296001]

Engineering ; Environmental Sciences & Ecology

Engineering, Environmental ; Environmental Sciences

WOS:000413391800040

AMER CHEMICAL SOC

20174304296076

Biogeochemistry ; Biomolecules ; Denitrification ; Genes ; Kinetics ; Metabolites ; Microorganisms ; Reaction intermediates

Biological Materials and Tissue Engineering:461.2 ; Biology:461.9 ; Geochemistry:481.2 ; Chemical Reactions:802.2 ; Chemical Products Generally:804 ; Classical Physics; Quantum Theory; Relativity:931

ENVIRONMENT/ECOLOGY

Web of Science

1.China Univ Geosci, Sch Environm Studies, Wuhan 430074, Hubei, Peoples R China
2.Pacific Northwest Natl Lab, Richland, WA 99354 USA
3.Southern Univ Sci & Technol, Sch Environm Sci & Engn, Shenzhen 518055, Peoples R China

Li, Minjing,Qian, Wei-jun,Gao, Yuqian,et al. Functional Enzyme-Based Approach for Linking Microbial Community Functions with Biogeochemical Process Kinetics[J]. ENVIRONMENTAL SCIENCE & TECHNOLOGY,2017,51(20):11848-11857.

Li, Minjing,Qian, Wei-jun,Gao, Yuqian,Shi, Liang,&Liu, Chongxuan.(2017).Functional Enzyme-Based Approach for Linking Microbial Community Functions with Biogeochemical Process Kinetics.ENVIRONMENTAL SCIENCE & TECHNOLOGY,51(20),11848-11857.

Li, Minjing,et al."Functional Enzyme-Based Approach for Linking Microbial Community Functions with Biogeochemical Process Kinetics".ENVIRONMENTAL SCIENCE & TECHNOLOGY 51.20(2017):11848-11857.