Dynamic modeling of subcellular phenylpropanoid metabolism in Arabidopsis lignifying cells
Abstract
Lignin is a polymer that greatly inhibits saccharification of plant feedstocks. Adjusting the composition or reducing the total lignin content have both been demonstrated to result in an increase in sugar yield from biomass. Yet, because lignin is essential for plant growth, it cannot be manipulated with impunity. Thus, it is important to understand the control of carbon flux towards lignin biosynthesis such that optimal modifications to it can be made precisely. Phenylalanine (Phe) is the common precursor for all lignin subunits and it is commonly accepted that all biosynthetic steps, spanning multiple subcellular compartments, are known, yet an in vivo model of how flux towards lignin is controlled is lacking. To address this deficiency, we formulated and parameterized a kinetic model based on data from feeding Arabidopsis thaliana basal lignifying stems with ring labeled [13C6]-Phe. Several candidate models were compared by an information theoretic approach to select the one that best matched the experimental observations. Here we present a dynamic model of phenylpropanoid metabolism across several subcellular compartments that describes the allocation of carbon towards lignin biosynthesis in wild-type Arabidopsis stems. Flux control coefficients for the enzymes in the pathway starting from arogenate dehydratase through 4-coumarate: CoA ligase weremore »
- Publication Date:
- Research Org.:
- Purdue Univ., West Lafayette, IN (United States)
- Sponsoring Org.:
- USDOE Office of Science (SC), Biological and Environmental Research (BER)
- OSTI Identifier:
- 1597087
- Alternate Identifier(s):
- OSTI ID: 1548085
- Grant/Contract Number:
- SC0008628
- Resource Type:
- Accepted Manuscript
- Journal Name:
- Metabolic Engineering
- Additional Journal Information:
- Journal Volume: 49; Journal Issue: C; Journal ID: ISSN 1096-7176
- Publisher:
- Elsevier
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 09 BIOMASS FUELS; 13C isotopic labeling; Kinetic modeling; Model selection; Phenylpropanoid metabolism; Lignin biosynthesis
Citation Formats
Guo, Longyun, Wang, Peng, Jaini, Rohit, Dudareva, Natalia, Chapple, Clint, and Morgan, John. Dynamic modeling of subcellular phenylpropanoid metabolism in Arabidopsis lignifying cells. United States: N. p., 2018.
Web. doi:10.1016/j.ymben.2018.07.003.
Guo, Longyun, Wang, Peng, Jaini, Rohit, Dudareva, Natalia, Chapple, Clint, & Morgan, John. Dynamic modeling of subcellular phenylpropanoid metabolism in Arabidopsis lignifying cells. United States. https://doi.org/10.1016/j.ymben.2018.07.003
Guo, Longyun, Wang, Peng, Jaini, Rohit, Dudareva, Natalia, Chapple, Clint, and Morgan, John. Tue .
"Dynamic modeling of subcellular phenylpropanoid metabolism in Arabidopsis lignifying cells". United States. https://doi.org/10.1016/j.ymben.2018.07.003. https://www.osti.gov/servlets/purl/1597087.
@article{osti_1597087,
title = {Dynamic modeling of subcellular phenylpropanoid metabolism in Arabidopsis lignifying cells},
author = {Guo, Longyun and Wang, Peng and Jaini, Rohit and Dudareva, Natalia and Chapple, Clint and Morgan, John},
abstractNote = {Lignin is a polymer that greatly inhibits saccharification of plant feedstocks. Adjusting the composition or reducing the total lignin content have both been demonstrated to result in an increase in sugar yield from biomass. Yet, because lignin is essential for plant growth, it cannot be manipulated with impunity. Thus, it is important to understand the control of carbon flux towards lignin biosynthesis such that optimal modifications to it can be made precisely. Phenylalanine (Phe) is the common precursor for all lignin subunits and it is commonly accepted that all biosynthetic steps, spanning multiple subcellular compartments, are known, yet an in vivo model of how flux towards lignin is controlled is lacking. To address this deficiency, we formulated and parameterized a kinetic model based on data from feeding Arabidopsis thaliana basal lignifying stems with ring labeled [13C6]-Phe. Several candidate models were compared by an information theoretic approach to select the one that best matched the experimental observations. Here we present a dynamic model of phenylpropanoid metabolism across several subcellular compartments that describes the allocation of carbon towards lignin biosynthesis in wild-type Arabidopsis stems. Flux control coefficients for the enzymes in the pathway starting from arogenate dehydratase through 4-coumarate: CoA ligase were calculated and show that the plastidial cationic amino-acid transporter has the highest impact on flux.},
doi = {10.1016/j.ymben.2018.07.003},
journal = {Metabolic Engineering},
number = C,
volume = 49,
place = {United States},
year = {Tue Jul 17 00:00:00 EDT 2018},
month = {Tue Jul 17 00:00:00 EDT 2018}
}
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Works referencing / citing this record:
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