With the versatile metabolic diversity, Pseudomonas fluorescens is a potential candidate in petroleum aromatic hydrocarbon (PAH) bioremediation. Genome-scale metabolic model (GSMM) can provide systematic information to guide the development of metabolic engineering strategy to improve microbial activity. In this study, a GSMM for P. fluorescens SBW25 was reconstructed, which is termed as lCW1057. The reconstruction was based on automatic reannotation and manual curation. The periplasmic compartment was constructed to better represent the proton gradient profile. The reconstructed proton transport chain has a P/O (ATP generated per atom oxygen consumed by the respiratory chain) ratio of 11/8. Flux balance analysis (FBA) was performed to explore the whole-cell metabolic flow. The model suggested that instead of Embden-Meyerhof-Parnas pathway, Entner-Doudoroff pathway was used in glycolytic metabolism of P. fluorescens, indicating that the growth of P. fluorescens is more energy dependent. Furthermore, P. fluorescens can use nitrate as the terminal electron acceptor for the glucose metabolism. The β-ketoadipate pathway was involved in catechol metabolism. The uptake of oxygen is mandatory for the aromatic ring cleavage. The in silico and in vitro maximum specific growth rate was compared, resulting in 10% difference when catechol was used as the sole carbon source.

中文翻译：

---

荧光假单胞菌的三室基因组规模的代谢模型的重建和分析。

凭借丰富的代谢多样性，荧光假单胞菌是石油芳香烃（PAH）生物修复的潜在候选者。基因组规模的代谢模型（GSMM）可以提供系统的信息，以指导代谢工程策略的发展，以提高微生物活性。在本研究中，重建了荧光假单胞菌SBW25的GSMM，称为ICW1057。重建基于自动重新注释和手动管理。周质室被构造为更好地表示质子梯度分布。重建的质子传输链的P / O（呼吸链消耗的每个原子氧产生的ATP）比率为11/8。进行通量平衡分析（FBA）以探索全细胞代谢流。该模型表明，除了Embden-Meyerhof-Parnas通路外，Entner-Doudoroff途径被用于荧光假单胞菌的糖酵解代谢，表明荧光假单胞菌的生长对能量的依赖性更大。此外，荧光假单胞菌可以使用硝酸盐作为葡萄糖代谢的末端电子受体。β-酮己二酸途径参与儿茶酚代谢。氧的吸收对于芳环的裂解是强制性的。比较了计算机和体外最大比生长速率，当使用儿茶酚作为唯一碳源时，差异为10％。氧的吸收对于芳环的裂解是强制性的。比较了计算机和体外最大比生长速率，当使用儿茶酚作为唯一碳源时，差异为10％。氧的吸收对于芳环的裂解是强制性的。比较了计算机和体外最大比生长速率，当使用儿茶酚作为唯一碳源时，差异为10％。