通过数学建模,将微生物丰富度时间序列与肠微生物组的发酵动态相结合
Mohsen Davoudkhani1, Francesco Rubino2, Christopher J Creevey2
1INRAE, AgroParisTech, UMR Modélisation Systémique Appliquée aux Ruminants, Université Paris-Saclay, Palaiseau, France.
PloS one
|March 20, 2024
概括
这项研究将肠微生物数据与动态建模相结合,以预测挥发性脂肪酸 (VFA) 生产. 这种新方法准确地估计了VFA动态,进步了我们对肠微生物代谢的理解.
科学领域:
- 流体微生物学 流体微生物学
- 计算生物学是一种计算生物学.
- 动物营养动物营养
背景情况:
- 皮是一种复杂的微生物生态系统,其中饮食会影响代谢物和微生物动态.
- 将微生物基因组学与动态建模相结合,可以在系统层面上了解功能.
- 在将动态模型与肠微生物群时间序列数据集成方面存在差距.
研究的目的:
- 将菌群时间序列数据 (16S rRNA基因测序) 集成到动态建模框架中.
- 将微生物数据与发酵过程中挥发性脂肪酸 (VFA) 生产的动态联系起来.
- 开发一个模型,用微生物功能代理来估计VFA动态.
主要方法:
- 利用状态观察者理论创建一个估计VFA动态的模型.
- 采用CowPi来推断乳头微生物的功能潜力和KEGG模块.
- 使用体外 (RUSITEC) 和体内 (奶牛) 实验数据验证了模型.
主要成果:
- 该模型准确地估计了体外和体外环境中的VFA生产动态.
- 在VFA生产中,CVRMSE的平均值在9.8% (乙酸盐,体外) 到19.8% (酸盐,体外) 之间.
- VFA 分的平均CVRMSE 值较低,表明精确的估计 (例如,乙酸盐的3.1%).
结论:
- 开发的状态观察者模型有效地整合了肠微生物群时间序列数据.
- 这种方法对预测乳头微生物新陈代谢和VFA生产有希望.
- 整合促进了系统层面对生态系统的理解.
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