Antibiotic resistance is a growing problem worldwide and poses a serious threat to human health. Wastewater treatment plants play a key role in mitigating the propagation of antibiotic resistant bacteria because they are a collection point for all primary sources of antibiotic resistance. In this study, 98 E. coli strains were isolated from secondary effluent and an analysis of their antibiotic resistance profiles against 7 antibiotics was conducted. Then, four selected indigenous E. coli test strains and one control strain (ATCC 25922) were exposed to free chlorine (NaClO), peracetic acid and low-pressure UV treatments. The Log10 CFU colony forming unit recovery of the indigenous strains were compared to that of the control strain. The changes in antibiotic resistance for each strain from before to after disinfection were analyzed. Finally incidents of change in Kirby Bauer resistance classification from before to after disinfection were analyzed.