I don't believe that immuno-suppression itself is caused solely by bacteria, unless there is in some way a massive, initial bacterial impact on the system. It is environmental stress that causes the physiological decrease in the functioning of the animals immune system, which in turn allows bacteria that would otherwise be suppressed the opportunity to rapidly multiply within these animals. With these bacteria being always present in captive specimens, if bacteria alone were able to suppress the immune response in healthy, unstressed captive snakes, the majority of our animals would probably be showing some sign of disease most of the time.
This is further supported by your question on RI’s spreading through collections. There have been viruses that spread rapidly through collections of healthy snakes, but I am not aware of any cases where a bacterial infection spread through a majority of a collection. Not saying it couldn’t happen, but it would be an extreme case.
On newborns being infected at birth, and essentially clean within the female or egg, this has been studied. Dr. Richard Ross removed python eggs from a gravid female by caesarian section shortly before laying, and found them to contain bacterial species that were known to be pathogenic to stressed captive pythons. These eggs were removed and opened under sterile hospital conditions, and every effort was taken to ensure that there was no outside contamination. So it is probably highly likely that un-born boas as well have already been exposed to some bacterial species before birth. Good questions and an interesting discussion topic.
Kelly