Bees manage the temperature of their hive with much precision so there still could be negative side effects that are undiscovered such as a change in digestion, reproduction, denatured enzymes or the flavour of honey. The maximum temperature that a hive can withstand is 43 C for 30 minutes. According to Linhart, 40 C for 150 minutes is perfectly safe for the bees and the treatment would only be reaped once to destroy the mites that resisted the initial treatment.
This method has only been tested with the Varroa Destructor mite in mind and disregards other threats such as Nosema, a parasitic fungus.
Sources:BBC, About heat reflecting glass, Hive temperature.
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