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Abstract
Pulsed field gel electrophoresis allows separation and visualization of very large DNA molecules. This powerful technique is predominantly used in many aspects in molecular biology and medical diagnostics. Since the procedure for the preparation of the samples involves several steps, many different parameters can be changed and subsequently influence the resolution of the results. Therefore, in the current work, different parameters were altered to optimize the assay to get good resolution of the Xba I digested DNA fragments isolated from E.coli MG1655. This study suggested that the type and concentration of agarose in the samples have a big effect on subsequent steps in DNA isolation and highly influenced their visualization. Slightly altered conditions in the sample preparation resulted in a clear resolution of the DNA fragments.