Answer:
When directed mutagenesis which is also called reverse genetics is used, only a single mutation per genome is introduced. In contrast, the number of mutations per genome introduced by random mutagenesis is usually difficult to control. It is likely that the strain you obtained with a mutation in gene X after random mutagenesis contained an additional mutation or perhaps multiple mutations which ultimately was/were responsible for loss of virulence in your favorite pathogen.
Prokaryotic cells DO NOT have centrioles, cytoskeleton, cilia or vesicles but they DO contain a prokaryotic flagella.
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