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The aim of this study was to evaluate the ability of three obturation methods to seal root canals prepared using 0.06 taper rotary instruments. Forty-five extracted human single-rooted teeth were instrumented with 0.06 taper Profile nickel-titanium rotary files and randomly divided into three experimental groups containing 15 teeth each. The first group was obturated using the System B technique with 0.06 taper standardised gutta-percha points, the second group was obturated using the System B technique with non-standardised MF gutta-percha points, the third group was obturated by cold lateral condensation technique using standardised 0.02 taper master gutta-percha points. Apical leakage of the roots was evaluated by dye penetration using a stereomicroscope after sectioning the roots. The group obturated using System B and 0.06 taper gutta-percha points showed the least dye penetration. However, the difference in the linear extent of dye penetration was not statistically significant.