耐盐菌海洋单胞菌GK1基因组尺度代谢网络模型的构建

张佳; 侯雅男; 申邵恒; 黄聪

doi:10.13205/j.hjgc.202505005

耐盐菌海洋单胞菌GK1基因组尺度代谢网络模型的构建

doi: 10.13205/j.hjgc.202505005

张佳¹,
侯雅男^1,2,,
申邵恒¹,
黄聪^2,

1. 天津城建大学环境与市政工程学院, 天津 300384;
2. 中国科学院天津工业生物技术研究中心, 天津 300308

基金项目:

天津市研究生科研创新项目“基于生命周期理论的生物电化学耦合A₂O工艺处理效能及环境影响研究”（2022SKYZ321）

详细信息

作者简介:
张佳（1999—），女，硕士研究生，主要研究方向为污水处理与资源化。zhangjia@tib.cas.cn

通讯作者:
侯雅男（1989—），女，副教授，主要研究方向为污水处理与资源化。houyn2013@163.com；黄聪（1984—），男，副研究员，主要研究方向为工业废水处理技术。huangc@tib.cas.cn

侯雅男（1989—），女，副教授，主要研究方向为污水处理与资源化。houyn2013@163.com；黄聪（1984—），男，副研究员，主要研究方向为工业废水处理技术。huangc@tib.cas.cn

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出版历程
- 收稿日期: 2024-03-31
- 录用日期: 2024-05-31
- 修回日期: 2024-04-21
- 网络出版日期: 2025-09-11

Construction of a genome-scale metabolic network model for the halotolerant bacterium Oceanimosas sp. GK1

1. School of Environmental and Municipal Engineering, Tianjin Chengjian University, Tianjin 300384, China;
2. Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China

摘要

摘要: 随着高通量技术的发展，基因组尺度代谢网络模型（GEMs）作为一种新兴模型，可以在系统层面上理解微生物的生化表型，描述和预测其菌株的行为。研究构建了来自高盐废水活性污泥中海洋单胞菌GK1（Oceanimonas sp.GK1）的GEM，通过迭代修正，最终形成iZJ929模型。借助此模型，预测了该菌株的中心代谢途径代谢通量分布，发现在缺氧条件下，糖酵解和三羧酸循环途径通量增加，以满足细胞的能量需求。分析了其产四氢嘧啶的过表达靶点，在以葡萄糖和乙酸作为模拟底物时，分别有8种和7种潜在扩增靶点，为后续遗传改造提供有效信息帮助。该研究表明GEMs是环境工程领域的一个有效工具，此模型的建立为解析Oceanimonas sp.GK1其生长表型提供理论支持。
- 海洋单胞菌GK1 /
- 基因组尺度代谢网络模型 /
- 代谢途径 /
- 过表达靶点 /
- 四氢嘧啶
Abstract: In recent years， numerous industrial activities have discharged substantial amounts of saline wastewater. Although many halotolerant bacteria have been selected from natural environments， the complexity and interconnectivity of the metabolic networks that constitute biological systems make it impossible to manually clarify the hundreds to thousands of components within a target strain. With the advancement of high-throughput technologies， genome-scale metabolic network models （GEMs） have emerged as a novel model for understanding microbial biochemical phenotypes at the system level， enabling the description and prediction of strain behavior. The study constructed the first GEM of Oceanimonas. Through corrections of ATP synthesis， the respiratory chain， and biomass composition， the final model， named iZJ929， was established. Leveraging this model， the metabolic flux distribution in the central metabolic pathway of this strain was predicted。It was found that the fluxes of glycolysis and tricarboxylic acid cycle pathway increased under anaerobic conditions to meet the energy demands of the cell. The overexpression targets for ectoine production were analyzed. When glucose and acetate were used as simulated substrates， there were 8 and 7 potential amplification targets， respectively， which provided valuable information for subsequent genetic modifications. Overall， GEMs serve as effective tools in the field of environmental engineering， and the establishment of this model provides theoretical support for analyzing the growth phenotype of Oceanimonas sp. GK1.
- Oceanimonas sp.GK1 /
- genome-scale metabolic network models /
- metabolic pathway /
- overexpression of the target /
- ectoine

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