Both are microscopic. Both cause diseases.
Bacteria are single-cell organisms that live everywhere. Some are beneficial - for example help us to digest food. Others, called pathogenic, cause illnesses. Bacteria are self-sufficient and can replicate themselves from any other living cell through subdivision.
Viruses are typically 1 to 100 times smaller than bacteria. Viruses can only reproduce by entering a living cell. Drugs which target viruses are usually very toxic to the host cell.
Antibiotics kill bacteria, but not viruses. In fact, if you take antibiotics to try to treat a viral infection, this will affect the virus and may cause other unwanted effects.
Other microscopic invaders that cause disease include fungi - slightly larger than bacteria and responsible for conditions such as candida and protozoa - tiny single cell parasites such as Cryptosporidium that can live in your body.
(Excepted from Reader's Digest Sep 2009 Edition)
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