Potential application of a knowledgebase of iron metabolism of Acidithiobacillus ferrooxidans as an alternative platform
| Autor: | Peng Chen, Rentao Zhang, Wantong Ma, Zhongkun Zhou, Yuheng Liu, Kangjia Du, Shiqiang Ge, Yunhao Ma, Ashikujaman Syed, Shujian Hu |
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| Rok vydání: | 2021 |
| Předmět: |
0106 biological sciences
0301 basic medicine QH301-705.5 Systems biology Integration Computational biology 01 natural sciences Applied Microbiology and Biotechnology Ferrous Database 03 medical and health sciences 010608 biotechnology Bioleaching Statistical analysis Biology (General) Kinetic model Chemistry Acidithiobacillus ferrooxidans Iron metabolism Soil remediation 030104 developmental biology TP248.13-248.65 Biotechnology |
| Zdroj: | Electronic Journal of Biotechnology, Vol 52, Iss, Pp 45-51 (2021) |
| ISSN: | 0717-3458 |
| DOI: | 10.1016/j.ejbt.2021.04.003 |
| Popis: | Background: Acidithiobacillus ferrooxidans is a facultative anaerobe that depends on ferrous ion oxidation as well as reduced sulfur oxidation to obtain energy and is widely applied in metallurgy, environmental protection, and soil remediation. With the accumulation of experimental data, metabolic mechanisms, kinetic models, and several databases have been established. However, scattered data are not conducive to understanding A. ferrooxidans that necessitates updated information informed by systems biology. Results: Here, we constructed a knowledgebase of iron metabolism of A. ferrooxidans (KIMAf) system by integrating public databases and reviewing the literature, including the database of bioleaching substrates (DBS), the database of bioleaching metallic ion-related proteins (MIRP), the A. ferrooxidans bioinformation database (Af-info), and the database for dynamics model of bioleaching (DDMB). The DBS and MIRP incorporate common bioleaching substrates and metal ion-related proteins. Af-info and DDMB integrate nucleotide, gene, protein, and kinetic model information. Statistical analysis was performed to elucidate the distribution of isolated A. ferrooxidans strains, evolutionary and metabolic advances, and the development of bioleaching models. Conclusions: This comprehensive system provides researchers with a platform of available iron metabolism-related resources of A. ferrooxidans and facilitates its application. How to cite: Zhou Z, Ma W, Liu Y, et al. Potential application of a knowledgebase of iron metabolism of Acidithiobacillus ferrooxidans as an alternative platform. Electron J Biotechnol 2021;51; https://doi.org/10.1016/j.ejbt.2021.04.003 |
| Databáze: | OpenAIRE |
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