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In Paris, in 1572, the First Doctor revealed to Charles Preslin that "a man in Germany" was "working on optics, trying to make a machine, which" enabled one to see "small creatures" called "germs". (TV: The Massacre of St Bartholomew's Eve)
While at the Wholeweal community, Professor Clifford Jones and the Third Doctor employed a microscope to study the slime from the giant maggots, in order to find a cure for the "green death" they were causing. (TV: The Green Death)
In 2070, in the Moonbase, the Second Doctor discovered that the Cybermen had infected the human scientists with a large neurotropic virus named Neurotrope X, thanks to a microscope in the medical unit of the base. (TV: The Moonbase)
Other planets Edit
On the planet Alzarius in the E-Space, microscopes were available. The Fourth Doctor used one to compare specimens from the Marshmen and the Alzarian spider. This led to the discovery of the common genetic origin of the two species and the Alzarians. (TV: Full Circle)