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Reconstruction, verification and in-silico analysis of a genome-scale metabolic model of bacterial cellulose producing Komagataeibacter xylinus.
Bioprocess and Biosystems Engineering ( IF 3.8 ) Pub Date : 2020-02-01 , DOI: 10.1007/s00449-020-02299-4
Mohammad Rezazadeh 1 , Valiollah Babaeipour 1 , Ehsan Motamedian 2
Affiliation  

In this study, a comprehensive genome-scale metabolic network of Komagataeibacter xylinus as the model microorganism was reconstructed based on genome annotation, for better understanding of metabolic growth and biosynthesis of bacterial cellulose (BC). The reconstructed network included 640 genes, 783 metabolic reactions and 865 metabolites. The model was completely successful to predict the lack of growth under anaerobic conditions. Model validation by the data for the growth of acetic acid bacteria with ethanol-limited chemostat cultures showed that there is a good agreement for the O2 and CO2 fluxes with actual growth conditions. Then the model was used to forecast the simultaneous production of BC and by-products. The obtained data showed that the rate of BC production is consistent with experimental data with an accuracy of 93.7%. Finally, the study of flux balance analysis (FBA) data showed that the pentose phosphate pathway and the TCA cycle play an important role in growth-promoting metabolism in K. xylinus and have a close relationship with BC biosynthesis. By integrating this model with various metabolic engineering and systems biology tools in the future, it is possible to overcome the common challenges in the large-scale BC production, such as low yield and productivity.

中文翻译:

产生,生产木糖细菌的细菌纤维素的基因组规模代谢模型的重建,验证和计算机模拟分析。

在这项研究中,以基因组注释为基础,构建了作为模型微生物的木糖动杆菌的完整基因组规模代谢网络,以更好地了解细菌纤维素(BC)的代谢生长和生物合成。重建的网络包括640个基因,783个代谢反应和865个代谢产物。该模型完全成功地预测了厌氧条件下生长的缺乏。通过使用乙醇有限的恒化器培养的醋酸细菌生长数据的模型验证表明,氧气和二氧化碳通量与实际生长条件有很好的一致性。然后,使用该模型预测BC和副产物的同时生产。获得的数据表明,BC产生的速率与实验数据一致,准确率为93.7%。最后,通量平衡分析(FBA)数据的研究表明,磷酸戊糖途径和TCA循环在木糖K.linus的生长促进代谢中起重要作用,并且与BC生物合成密切相关。通过将来将此模型与各种代谢工程和系统生物学工具集成,有可能克服大规模BC生产中的常见挑战,例如低产量和高生产率。
更新日期:2020-02-01
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