Genome-scale modeling of the primary-specialized metabolism interface. (August 2022)

• Record Type: Journal Article
• Authors: Beilsmith, Kathleen; Henry, Christopher S.; Seaver, Samuel M.D.
• Is Part Of: Current opinion in plant biology. Volume 68(2022)
• Publication Date: 2022-08
• Subjects: Genome-scale metabolic models -- Metabolism -- Primary-specialized metabolism tradeoff -- Flux balance analysis -- Mass spectrometry; GSM genome-scale metabolic model -- CAM Crassulacean acid metabolism -- GPR gene-protein-reaction relationships -- FBA flux balance analysis -- KEGG Kyoto Encyclopedia of Genes and Genomes -- CHS chalcone synthase -- IAA indole-3-acetic acid, auxin -- MEP methylerythritol 4-phosphate -- NAD nicotinamide adenine dinucleotide -- MS mass spectrometry -- HPLC high-performance liquid chromatography -- MS–MS tandem mass spectrometry -- QTOF quadrupole time of flight spectrometry -- DFBA dynamic flux balance analysis -- IOMA integrated omics-metabolomic analysis; Plant molecular biology -- Periodicals; 571.205
• DOI: 10.1016/j.pbi.2022.102244
• Languages: English
• ISSNs: 1369-5266

Abstract

Abstract: Environmental challenges and development require plants to reallocate resources between primary and specialized metabolites to survive. Genome-scale metabolic models, which map carbon flux through metabolic pathways, are a valuable tool in the study of tradeoffs that arise at this interface. Due to annotation gaps, models that characterize all the enzymatic steps in individual specialized pathways and their linkages to each other and to central carbon metabolism are difficult to construct. Recent studies have successfully curated subsystems of specialized metabolism and characterized the interfaces where flux is diverted to the precursors of glucosinolates, terpenes, and anthocyanins. Although advances in metabolite profiling can help to constrain models at this interface, quantitative analysis remains challenging because of the different timescales on which specialized metabolites from constitutive and reactive pathways accumulate.