Genome-Scale, Constraint-Based Modeling of Nitrogen Oxide Fluxes during Coculture of Nitrosomonas europaea and Nitrobacter winogradskyi

Mellbye, Brett L.; Giguere, Andrew T.; Murthy, Ganti S.; Bottomley, Peter J.; Sayavedra-Soto, Luis A.; Chaplen, Frank W.  R.

doi:10.1128/msystems.00170-17

Genome-Scale, Constraint-Based Modeling of Nitrogen Oxide Fluxes during Coculture of Nitrosomonas europaea and Nitrobacter winogradskyi

Journal Article · Tue Mar 13 00:00:00 EDT 2018 · mSystems

DOI:https://doi.org/10.1128/msystems.00170-17· OSTI ID:1626174

^[1]; Giguere, Andrew T. ^[2]; Murthy, Ganti S. ^[3]; Bottomley, Peter J. ^[4]; Sayavedra-Soto, Luis A. ^[5]; Chaplen, Frank W. R. ^[3]

Oregon State Univ., Corvallis, OR (United States). Dept. of Botany and Plant Pathology; DOE/OSTI
Oregon State Univ., Corvallis, OR (United States). Dept. of Crop and Soil Science
Oregon State Univ., Corvallis, OR (United States). Biological and Ecological Engineering
Oregon State Univ., Corvallis, OR (United States). Dept. of Crop and Soil Science; Oregon State Univ., Corvallis, OR (United States). Dept. of Microbiology
Oregon State Univ., Corvallis, OR (United States). Dept. of Botany and Plant Pathology

Nitrification, the aerobic oxidation of ammonia to nitrate via nitrite, emits nitrogen (N) oxide gases (NO, NO₂, and N₂O), which are potentially hazardous compounds that contribute to global warming. To better understand the dynamics of nitrification-derived N oxide production, we conducted culturing experiments and used an integrative genome-scale, constraint-based approach to model N oxide gas sources and sinks during complete nitrification in an aerobic coculture of two model nitrifying bacteria, the ammonia-oxidizing bacterium Nitrosomonas europaea and the nitrite-oxidizing bacterium Nitrobacter winogradskyi. The model includes biotic genome-scale metabolic models (iFC578 and iFC579) for each nitrifier and abiotic N oxide reactions. Modeling suggested both biotic and abiotic reactions are important sources and sinks of N oxides, particularly under microaerobic conditions predicted to occur in coculture. In particular, integrative modeling suggested that previous models might have underestimated gross NO production during nitrification due to not taking into account its rapid oxidation in both aqueous and gas phases. The integrative model may be found at https://github.com/chaplenf/microBiome-v2.1.

View Accepted Manuscript (DOE)

Research Organization:: Oregon State Univ., Corvallis, OR (United States)

Sponsoring Organization:: National Science Foundation (NSF); USDA; USDOE Office of Science (SC)

Grant/Contract Number:: AC02-05CH11231

OSTI ID:: 1626174

Journal Information:: mSystems, Journal Name: mSystems Journal Issue: 3 Vol. 3; ISSN 2379-5077

Publisher:: American Society for MicrobiologyCopyright Statement

Country of Publication:: United States

Language:: English

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