Zhang Zhidong, Guo Qi, Qian Jinyi, Ye Chao, Huang He
College of Biotechnology and Pharmaceutical Engineering, Nanjing Technology University, Nanjing, China.
Institute of Microbiology, Xinjiang Academy of Agricultural Sciences, Urumqi, China.
Front Bioeng Biotechnol. 2023 Feb 17;11:1108412. doi: 10.3389/fbioe.2023.1108412. eCollection 2023.
Geosmin is one of the most common earthy-musty odor compounds, which is mainly produced by . was screened in radiation-polluted soil, which has the potential to overproduce geosmin. However, due to the complex cellular metabolism and regulation mechanism, the phenotypes of were hard to investigate. A genome-scale metabolic model of named ZDZ767 was constructed. Model ZDZ767 involved 1,411 reactions, 1,399 metabolites, and 767 genes; its gene coverage was 14.1%. Model ZDZ767 could grow on 23 carbon sources and five nitrogen sources, which achieved 82.1% and 83.3% prediction accuracy, respectively. For the essential gene prediction, the accuracy was 97.6%. According to the simulation of model ZDZ767, D-glucose and urea were the best for geosmin fermentation. The culture condition optimization experiments proved that with D-glucose as the carbon source and urea as the nitrogen source (4 g/L), geosmin production could reach 581.6 ng/L. Using the OptForce algorithm, 29 genes were identified as the targets of metabolic engineering modification. With the help of model ZDZ767, the phenotypes of could be well resolved. The key targets for geosmin overproduction could also be identified efficiently.
土臭素是最常见的土腥味化合物之一，主要由……产生。在受辐射污染的土壤中筛选到了……，其有可能过量产生土臭素。然而，由于复杂的细胞代谢和调控机制，……的表型难以研究。构建了一个名为ZDZ767的……的基因组规模代谢模型。ZDZ767模型涉及1411个反应、1399个代谢物和767个基因；其基因覆盖率为14.1%。ZDZ767模型可以在23种碳源和5种氮源上生长，预测准确率分别达到82.1%和83.3%。对于必需基因预测，准确率为97.6%。根据ZDZ767模型的模拟，D-葡萄糖和尿素最适合土臭素发酵。培养条件优化实验证明，以D-葡萄糖为碳源、尿素为氮源（4 g/L）时，土臭素产量可达581.6 ng/L。使用OptForce算法，鉴定出29个基因作为代谢工程改造的靶点。借助ZDZ767模型，可以很好地解析……的表型。也可以高效鉴定出土臭素过量产生的关键靶点。
