I lifted this quote from a closed thread to clarify a point made (which was not related to the reason it was closed).
" First, you don't find "MRSA" in the stomach, well you sort of do in that all enterococci are resistant to the methicillin family, but it's not the same as "MRSA". Everyone is colonized with bacteria, and if some of that bacteria is resistant to methicillin antibiotics then we call it MRSA, but that doesn't mean that someone is oozing MRSA out of every possible place in their body, and it's actually usually localized; in a wound, in the sputum, in skin folds, etc. MRSA infections are treated, simple colonizations or getting some MRSA on you, or even in your eyes, should not be treated with antibiotics."
MRSA stands for "methicillin-resistant Staphylococcus aureus," and not anything else. An enterococcus is not a staphylococcus. We don't call anything that's methicillin-resistant "MRSA." Calling anything that's resistant to methicillin "MRSA" is inaccurate and misleading, and bespeaks an indication to go back to your micro textbook for a refresher. Here's a good article that also clarifies what's infection and what's colonization, and how that works specifically in people with MRSA.
http://www.nfid.org/content-conversion/idarchive/staph.html
Furthermore, recent research indicates that swabbing nares with mupirocin (Bactroban) for every patient in the ICU, without regard to whether cultures were done or not, reduced the number of MRSA infections in the unit as a whole. So yes, prophylaxis is becoming standard in those settings.