His concern is leaving honey in the channels after harvest. The honey then absorbs moisture from the air as it is hygroscopic and may set up a situation that microbes can reproduce. The next batch of honey (as long as it is harvested at the correct time) will kill bacteria but not botulism spores or toxin. Spores are really only a problem for infants but enough toxin can be harmful to adults. So I understand the reasoning.
However, the current evidence does not support the theory. It really shouldn’t be any more unsafe extracting normally.
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There are already botulism spores in some of the honey we eat which is only a problem for infants.
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In traditional beekeeping no one sanitizes the comb after extraction. Even after letting bees clean up there is still going to be honey present (which by the same theory absorb moisture and set up an culture for bacteria). In fact that comb can sit around for a very long time before being placed back into the hive, yet we don’t see any epidemic of botulism poisonings.
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Being a trained pharmacist does not make you an expert in microbiology.
-Mike