Microbial carbon use efficiency predicted from genome-scale metabolic models
Abstract
Respiration by soil bacteria and fungi is one of the largest fluxes of carbon (C) from the land surface. Although this flux is a direct product of microbial metabolism, controls over metabolism and their responses to global change are a major uncertainty in the global C cycle. Here, we explore an in silico approach to predict bacterial C-use efficiency (CUE) for over 200 species using genome-specific constraint-based metabolic modeling. We find that potential CUE averages 0.62 ± 0.17 with a range of 0.22 to 0.98 across taxa and phylogenetic structuring at the subphylum levels. Potential CUE is negatively correlated with genome size, while taxa with larger genomes are able to access a wider variety of C substrates. Incorporating the range of CUE values reported here into a next-generation model of soil biogeochemistry suggests that these differences in physiology across microbial taxa can feed back on soil-C cycling.
- Publication Date:
- Research Org.:
- Univ. of Illinois, Champaign, IL (United States). Center for Advanced Bioenergy and Bioproducts Innovation
- Sponsoring Org.:
- USDOE Office of Science (SC), Biological and Environmental Research (BER)
- OSTI Identifier:
- 1619681
- Alternate Identifier(s):
- OSTI ID: 1558097
- Grant/Contract Number:
- 502206221; SC0018420
- Resource Type:
- Published Article
- Journal Name:
- Nature Communications
- Additional Journal Information:
- Journal Name: Nature Communications Journal Volume: 10 Journal Issue: 1; Journal ID: ISSN 2041-1723
- Publisher:
- Nature Publishing Group
- Country of Publication:
- United Kingdom
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; Carbon use efficiency; soil bacteria
Citation Formats
Saifuddin, Mustafa, Bhatnagar, Jennifer M., Segrè, Daniel, and Finzi, Adrien C. Microbial carbon use efficiency predicted from genome-scale metabolic models. United Kingdom: N. p., 2019.
Web. doi:10.1038/s41467-019-11488-z.
Saifuddin, Mustafa, Bhatnagar, Jennifer M., Segrè, Daniel, & Finzi, Adrien C. Microbial carbon use efficiency predicted from genome-scale metabolic models. United Kingdom. https://doi.org/10.1038/s41467-019-11488-z
Saifuddin, Mustafa, Bhatnagar, Jennifer M., Segrè, Daniel, and Finzi, Adrien C. Thu .
"Microbial carbon use efficiency predicted from genome-scale metabolic models". United Kingdom. https://doi.org/10.1038/s41467-019-11488-z.
@article{osti_1619681,
title = {Microbial carbon use efficiency predicted from genome-scale metabolic models},
author = {Saifuddin, Mustafa and Bhatnagar, Jennifer M. and Segrè, Daniel and Finzi, Adrien C.},
abstractNote = {Respiration by soil bacteria and fungi is one of the largest fluxes of carbon (C) from the land surface. Although this flux is a direct product of microbial metabolism, controls over metabolism and their responses to global change are a major uncertainty in the global C cycle. Here, we explore an in silico approach to predict bacterial C-use efficiency (CUE) for over 200 species using genome-specific constraint-based metabolic modeling. We find that potential CUE averages 0.62 ± 0.17 with a range of 0.22 to 0.98 across taxa and phylogenetic structuring at the subphylum levels. Potential CUE is negatively correlated with genome size, while taxa with larger genomes are able to access a wider variety of C substrates. Incorporating the range of CUE values reported here into a next-generation model of soil biogeochemistry suggests that these differences in physiology across microbial taxa can feed back on soil-C cycling.},
doi = {10.1038/s41467-019-11488-z},
journal = {Nature Communications},
number = 1,
volume = 10,
place = {United Kingdom},
year = {2019},
month = {8}
}
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