Functional decomposition of metabolism allows a system-level quantification of fluxes and protein allocation towards specific metabolic functions.
Functional decomposition of metabolism allows a system-level quantification of fluxes and protein allocation towards specific metabolic functions.
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DOI：
10.1038/s41467-023-39724-7
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发表时间：
2023-07-13
影响因子：
16.6
通讯作者：
Hwa, Terence
中科院分区：
文献类型：
--
作者：
Mori, Matteo;Cheng, Chuankai;Taylor, Brian R.;Okano, Hiroyuki;Hwa, Terence
量化单个分子组分对复杂细胞过程的贡献是系统生物学的一个巨大挑战。在这里，我们建立了一个通用的理论框架（代谢功能分解，FDM）来量化每个代谢反应对代谢功能的贡献，例如生物质结构单元的合成。FDM允许生长大肠杆菌细胞的能量和生物合成预算的详细量化。令人惊讶的是，葡萄糖生物合成过程中产生的ATP几乎平衡了蛋白质合成的需求，蛋白质合成是细胞生长中已知的最大能量消耗。这使得发酵和呼吸产生的大部分能量无法解释，从而挑战了能源是限制生长的关键资源的普遍观念。此外，FDM与蛋白质组学一起能够量化对每个代谢功能有贡献的酶，从而允许基于代谢网络结构的全局蛋白质分配的粗粒度模型的第一原理制定。量化单个分子组分对复杂细胞过程的贡献是系统生物学的一个巨大挑战。在这里，作者提出了一个通用的理论框架（代谢的功能分解，FDM）来量化每个代谢反应对代谢功能的贡献，例如生物质结构单元的合成。
Quantifying the contribution of individual molecular components to complex cellular processes is a grand challenge in systems biology. Here we establish a general theoretical framework (Functional Decomposition of Metabolism, FDM) to quantify the contribution of every metabolic reaction to metabolic functions, e.g. the synthesis of biomass building blocks. FDM allowed for a detailed quantification of the energy and biosynthesis budget for growing Escherichia coli cells. Surprisingly, the ATP generated during the biosynthesis of building blocks from glucose almost balances the demand from protein synthesis, the largest energy expenditure known for growing cells. This leaves the bulk of the energy generated by fermentation and respiration unaccounted for, thus challenging the common notion that energy is a key growth-limiting resource. Moreover, FDM together with proteomics enables the quantification of enzymes contributing towards each metabolic function, allowing for a first-principle formulation of a coarse-grained model of global protein allocation based on the structure of the metabolic network. Quantifying the contribution of individual molecular components to complex cellular processes is a grand challenge in systems biology. Here, the authors present a general theoretical framework (Functional Decomposition of Metabolism, FDM) to quantify the contribution of every metabolic reaction to metabolic functions, e.g. the synthesis of biomass building blocks.
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影响因子：
9.9
作者：
Hermsen, Rutger;Okano, Hiroyuki;Hwa, Terence
通讯作者：
Hwa, Terence
影响因子：
64.8
作者：
Erickson DW;Schink SJ;Patsalo V;Williamson JR;Gerland U;Hwa T
通讯作者：
Hwa T
影响因子：
3
作者：
Angione C;Conway M;Lió P
通讯作者：
Lió P
DOI：
10.1016/j.bbagen.2011.05.014
发表时间：
2011-10-01
影响因子：
3
作者：
Goelzer, A.;Fromion, V.
通讯作者：
Fromion, V.
影响因子：
64.8
作者：
Basan M;Hui S;Okano H;Zhang Z;Shen Y;Williamson JR;Hwa T
通讯作者：
Hwa T