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Some shots, such as tetanus for example, can be given shortly after a known exposure. In addition, shots can be given in local areas during specific outbreaks instead of nationwide for all possible diseases. Mothers can be tested for diseases such as Hep B instead of giving all babies the shot when they will almost certainly have no exposure. There ARE options.
Antibiotics can be used preventatively across the board too. But it's strongly discouraged, and for good reason.
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