代谢的功能分解允许系统级量化流量和蛋白质分配到特定的代谢功能
Matteo Mori1, Chuankai Cheng2, Brian R Taylor3
1Department of Physics, University of California San Diego, 9500 Gilman Dr. La Jolla, San Diego, CA, 92093, USA. mamori@ucsd.edu.
Nature communications
|July 13, 2023
概括
一个新的框架量化了代谢反应及其对细胞功能的贡献. 令人惊的是,构建块合成的能量几乎与正在生长的大肠杆菌细胞中蛋白质合成需求相匹配.
科学领域:
- 系统生物学 系统生物学
- 代谢工程是代谢工程.
- 生物化学建模 生物化学建模
背景情况:
- 量化分子对细胞过程的贡献是一个主要的挑战.
- 了解细胞能量和生物合成预算对于系统生物学至关重要.
研究的目的:
- 开发一个理论框架 (代谢的功能分解,FDM) 来量化每个代谢反应对特定代谢功能的贡献.
- 分析培养大肠杆菌细胞的能量和生物合成预算.
主要方法:
- 开发了新陈代谢功能分解 (FDM) 理论框架.
- 使用FDM量化Escherichia coli中的代谢反应贡献.
- 整合FDM与蛋白质组学数据.
主要成果:
- FDM成功量化了种植大肠杆菌的能源和生物合成预算.
- 从葡萄糖中生成的ATP在构建块合成过程中几乎平衡了蛋白质合成的需求.
- 来自发酵和呼吸的大量能量仍然没有被计算出来,挑战能源限制作为主要生长约束.
- 基于代谢网络结构,制定了一个全球蛋白质分配的粗粒度模型.
结论:
- 这项研究挑战了能量是细胞代谢中主要增长限制资源的概念.
- 开发的FDM框架提供了一种用于剖析代谢功能和酶贡献的新方法.
- 这些发现为细胞代谢中蛋白质分配的第一原则模型铺平了道路.
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