Formulation of Freeze-Dried Microbial Preparations from Selected Bacterial Strains for the Treatment of Oil Pollution in Aquatic Environments
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Abstract
The effective implementation of bioremediation is often constrained by the stability and delivery of microbial inocula. This study investigated the development and optimization of a hydrocarbon-degrading consortium comprising three indigenous bacterial strains: Rhodococcus ruber JN5.2, Stenotrophomonas acidaminiphila ZB2.1, and Bacillus amyloliquefaciens MD3.3. Phylogenetic analysis confirmed the taxonomic diversity of the members, while cross-streak assays established total biological compatibility, enabling stable coexistence. In synthetic wastewater containing 5% (v/v) oil, the bacterial consortium achieved a total petroleum hydrocarbon (TPH) removal efficiency of 78 ± 6% within 14 days. This performance significantly exceeded that of individual strains (51-54%), supported by a Synergy Index (SI) of 1.48 and a peak biomass density of 8.6 ± 0.9 × 10⁸ CFU/mL. To enhance practical applicability, freeze-drying conditions were optimized. Harvesting biomass at the 24-hour growth phase and utilizing a protective formulation of 10% skim milk, 5% sodium glutamate, and 20% bentonite preserved bacterial viability at ≥ 9.3 log₁₀ CFU/mL after one month of storage. The consortium was evaluated in three formulations: liquid culture, freeze-dried powder (FDO-VN25), and alginate-immobilized beads. Validation using real car-washing wastewater (TPH ≤ 100 mg/L) revealed that while all the formulations improved degradation, the alginate-immobilized system consistently exhibited the highest stability and efficacy, achieving over 60% TPH removal after 14 days. These results demonstrate that integrating a native multi-species consortium with optimized lyophilization and alginate encapsulation provides a robust microbial solution for treating low-strength petroleum-contaminated effluents in complex environments.
Keywords
Bioremediation, Freeze-drying, Microbial consortium, Oil biodegradation, Wastewater treatment
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References
Bellali, S., Bou Khalil, J., Fontanini, A., Raoult, D., & Lagier, J. C. (2020). A new protectant medium preserving bacterial viability after freeze drying. Microbiological research, 236, 126454. https://doi.org/10.1016/j.micres.2020.126454
Cao, W., Passot, S., Irlinger, F., & Fonseca, F. (2024). Investigation of Freezing and Freeze-Drying for Preserving and Re-Using a Whole Microbial Cheese Community. Foods (Basel, Switzerland), 13(12), 1809. https://doi.org/10.3390/foods13121809
Chen, L., Zhao, S., Yang, Y., Li, L., & Wang, D. (2019). Study on degradation of oily wastewater by immobilized microorganisms with biodegradable polyacrylamide and sodium alginate mixture. Acs Omega, 4(12), 15149-15157. https://doi.org/10.1021/acsomega.9b02045
Chen, W., Chen, K., Sheu, D., Surampalli, R. Y., Zhang, T. C., & Kao, C. (2025). Development of a Novel Lyophilization Method for the Production of Bacterial Strain Powders to Enhance the Cleanup Efficiency of Petroleum Hydrocarbon–Polluted Soils. Journal of Environmental Engineering, 151(2). https://doi.org/10.1061/joeedu.eeeng-7735
Do, K. U., Kim, J. H., & Chu, X. Q. (2018). Sludge characteristics and performance of a membrane bioreactor for treating oily wastewater from a car wash service station. Desalination and Water Treatment, 120, 166-172. https://doi.org/10.5004/dwt.2018.22716
Do, T. T., Le, V. T., & Boukharev, G. (2022). Effects of freezing treatments and protective agents on the stability of Weissella cibaria TSL24.10 after freeze-drying. Moscow University Biological Sciences Bulletin, 77(4), 272–278. https://doi.org/10.3103/S0096392522040150
Jing, J., Wang, T., Guo, X., Huang, P., Li, C., & Qu, Y. (2024). Construction and application of petroleum-degrading bacterial agents: Community composition, lyophilization technology, and degradation mechanism. Journal of Environmental Chemical Engineering, 12(6), 114904. https://doi.org/10.1016/j.jece.2024.114904
Kim, J., Kim, J., & Lee, C. (2019). Anaerobic co-digestion of food waste, human feces, and toilet paper: Methane potential and synergistic effect. Fuel, 248, 189–195. https://doi.org/10.1016/j.fuel.2019.03.081
Khandelwal, A., Sugavanam, R., Ramakrishnan, B., Dutta, A., Varghese, E., Nain, L., Banerjee, T., & Singh, N. (2022). Free and immobilized microbial culture–mediated crude oil degradation and microbial diversity changes through taxonomic and functional markers in a sandy loam soil. Frontiers in Environmental Science, 9, 794303. https://doi.org/10.3389/fenvs.2021.794303
Li, H., Li, Y., Bao, M., & Li, S. (2021). Solid inoculants as a practice for bioaugmentation to enhance bioremediation of hydrocarbon contaminated areas. Chemosphere, 263, 128175. https://doi.org/10.1016/j.chemosphere.2020.128175
Li, X., Wang, M., Ding, M., Pang, X., Sun, J., & Lu, Y. (2025). Effects of complex cryoprotectant on the freeze-drying survival of Lactobacillus acidophilus FMNS-10 and its protective mechanisms. Journal of Stored Products Research, 112, 102646. https://doi.org/10.1016/j.jspr.2025.102646
Mansour, M. S. M., Abdel-Shafy, H. I., & Ibrahim, A. M. (2024). Petroleum wastewater: Environmental protection, treatment, and safe reuse: An overview. Journal of environmental management, 351, 119827. https://doi.org/10.1016/j.jenvman.2023.119827
Merivaara, A., Zini, J., Koivunotko, E., Valkonen, S., Korhonen, O., Fernandes, F. M., & Yliperttula, M. (2021). Preservation of biomaterials and cells by freeze-drying: Change of paradigm. Journal of controlled release: official journal of the Controlled Release Society, 336, 480-498. https://doi.org/10.1016/j.jconrel.2021.06.042
Pal, S., Hait, A., Mandal, S., Roy, A., Sar, P., & Kazy, S. K. (2024). Crude oil degrading efficiency of formulated consortium of bacterial strains isolated from petroleum-contaminated sludge. 3 Biotech, 14(10), 220. https://doi.org/10.1007/s13205-024-04066-8
Rezaei, Z., & Moghimi, H. (2024). Fungal-bacterial consortia: A promising strategy for the removal of petroleum hydrocarbons. Ecotoxicology and environmental safety, 280, 116543. https://doi.org/10.1016/j.ecoenv.2024.116543
Su, C., Jiang, S., & Dai, J. (2025). Development of a versatile synthetic microbe for the concurrent degradation of organic pollutants. Advanced biotechnology, 3(2), 16. https://doi.org/10.1007/s44307-025-00072-w
Wu, D., Wang, W., Yao, Y., Li, H., Wang, Q., & Niu, B. (2023). Microbial interactions within beneficial consortia promote soil health. Science of the Total Environment, 900, Article 165801. https://doi.org/10.1016/j.scitotenv.2023.165801
Wu, H., Du, X., Zheng, J., Li, X., Song, Q., Yan, Y., Ma, A., Xu, A., & Li, J. (2025). Top-down enrichment of oil-degrading microbial consortia reveals functional streamlining and novel degraders. Frontiers in microbiology, 16, 1656448. https://doi.org/10.3389/fmicb.2025.1656448
Zhang, J., Xue, Q., Gao, H., Lai, H., & Wang, P. (2016). Production of lipopeptide biosurfactants by Bacillus atrophaeus 5-2a and their potential use in microbial enhanced oil recovery. Microbial cell factories, 15(1), 168. https://doi.org/10.1186/s12934-016-0574-8