Abstract
Monitoring freshwater resources is crucial to drinking water quality. The Ismailia Canal supplies most freshwater to the Suez Canal area in Egypt. However, information on the freshwater microbiome is limited in this region. A total of 59 freshwater samples were collected. Along with determining the physicochemical properties of the samples, we used conventional methods to identify indicator bacteria. To overcome limitations of conventional culture, we employed high-throughput 16S rRNA gene sequencing, taxonomy profiling, and functional prediction to study uncultivated microbial communities. Total and fecal coliforms prevailed in 100% and 80% of samples, respectively. Predominant contaminants included E. coli, fecal streptococci, Pseudomonas aeruginosa, and Staphylococcus aureus. Taxonomic profiling revealed dominance of Proteobacteria and Actinobacteriota. Proteobacteria showed a positive correlation with Bacteroidetes and a negative correlation with Actinobacteria. Most samples had similar bacterial community structures, despite location-driven variability. Elevated bacterial loads were notable at the Qassasin district, which exhibited the highest relative abundance of genes associated with bacterial infections. This study provides key insights into the impact of freshwater microbiome on public health.