The antibacterial potency of alkaloid extracted from Phyllanthus niruri was examined on Fluoroquinolone resistant Escherichia coli isolated from different clinical samples using disk diffusion method. Different concentrations (0.1 – 5mg/ml) of the alkaloid were used. It was observed that at 0.5mg/ml the extract showed more potency on Escherichia coli isolated from urine than from other samples with a diameter of zone of inhibition of 25.5mm. The percentage susceptibility of the isolated bacterium from urine, blood, semen, swab, and high vagina swab( HVS) to the alkaloid were 75%, 75%, 100%, 60%and 60% respectively. Thirty-seven (37) strains were tested for extended- spectrum beta- lactamase (ESBL) identification. They were all positive for blaCTX-M in 37(100%) of the ESBL-carrying strains. CXT-M-14 was the most frequently isolated ESBL (n=15), followed by CTX-M-27 (n=12) and CTX-M-15(n=5), one strain (CEC7) was carrying both blaCTX-M-14 and blaCTX-M-15. Strain CEC14 was carrying a blaCTX-M-14 variant, which differed from the parental enzyme by a single transversion. Using PCR amplification, 4 clusters containing 9, 8, 3, and 2 strains were identified. Pulsed-field gel electrophoresis of FQ-resistant E. coli identified clonal spread of 1(one) strain among 18 patients. It was concluded that all the bacterium resistant to fluoroquinolone were susceptible to the alkaloid extract.