Using microorganisms in eliminating or reducing the impacts of harmful remnants is very ancient manner. The current study was conducted to explore the potential of utilizing some fungi species that isolated from the main sewage treatment plant in Al-Muamirah area, Babylon-Iraq, in reducing some pollutants. Six fungi taxa Aspergillus flavus, A. niger, A. terrues, Candida albicans, C. krusei, and Penicillium digitatum were identified before any treatment process, whereas only four fungi species A. flavus 20%, A. niger 20%, A. terrues 10%, and P. digitatum 18% were recognized after completing the physical and chemical treatment stages. Only three taxa A. niger, A. terrues, and P. digitatum were employed to reveal their capability in treating the sewage water, which represent the biological treatment stage as the final step of the treatment processes. The results showed a considerable capability of these fungi species in decreasing many variables values such as pH, total soluble solids (TSS), electrical conductivity (EC), salinity, total alkalinity, chlorides, nitrite, and phosphate. Where, slightly low reduction was detected in TSS value in all experiments (1.1–5.9%), similarly, both EC and salinity which were decreased with low ratios (6.6%, 3.9%, respectively). Taxon A. terrues exhibited high ability in reducing the total alkalinity and chloride ions in the treated water (30.9%, 43%, respectively) in comparison with the other two fungi species. Furthermore, all three fungi species were posed high capability in decreasing nutrients, where both nitrite and phosphate ions were highly reduced (87–97% and 22.8–32.1%, respectively). Based on these findings, we suggest using other microorganisms and exploring their capacity in removing the pollutants, and revealing the ability of the above fungi taxa in removing other pollutants. [ABSTRACT FROM AUTHOR]