Your skin is an incredible organ evolved to keep out toxins that your digestive system must remain vulnerable to if it is to continue doing its job. I believe this is why smell has evolved to be such a good/necessary indicator of what is acceptable for the digestive system. However, evolution takes time so I understand your concerns.
How do you feel about sunscreen?
Personally I only use deodorant and not antiperspirant. I use SpeedStick or sometimes just spray the pits with cologne.