Evolution in action.

[popeyespappy]

Perhaps it would be more apparent in real time, but I didn't see them stop much at all.  What I seen could possibly be explained as a bottleneck, where most of the bacteria where not able to survive in the antibiotic, but some where.  Once they got through, then they where able to spread in the new medium and start reproduction again.  Even a short stop at the changeover could be easily explained in this way.  Personally, I didn't see any mutant bacteria ninja turtles in the video (perhaps I missed it).   I think you are making an assumption here.  

Congratulations! You have just explained how natural selection works in evolution even though you have failed to grasp the significance. This experiment was probably not an example of a new genetic mutation. The mutation that allowed the bacteria to survive in the antibiotic was probably already present in a small portion of the population when it was introduced into the environment. It just didn't give that portion of the population any particular survival advantage until the environment changed. Once their environment changed though the only bacteria that could survive in it were the ones with a different genetic code. i.e. there was a change in the frequency of the alleles within the two separate populations. This is an example that clearly fits the very definition of evolution.

Same thing with the peppered moths. Some dark pigmented peppered moths existed prior to the changes in environment pressures selected them for a higher survival rate than lighter colored ones.

The nylon eating bacteria on the other hand is a documented example of a new mutation developing in a population It was actually a combination of two separate mutations that happened many generations apart. If you are suggesting that Yahweh was responsible for the mutations in this particular experiment, then please present the evidence for your hypothesis.