Make sure that shop vac has a high quality HEPA filter and wear a mask if you are genuinely immune compromised. Salmonella poisoning is fecal oral in transmission, so be sure not to touch your mouth with anything that has been contaminated with dust or inhaling the dust (because that often finds its way to the gut via post nasal secretions). From what I have read, it is generally not seen in a small, well maintained, home flock, but I suppose anything is possible.
EColi infections are also fecal oral and while most urinary infections are caused by ecoli, the ecoli has to enter the urinary tract at the urethral opening (so it is unlikely that this is caused by your chicks unless you wiped with hands that had the ecoli on them). Most urinary track infections are caused by your own ecoli... If the ecoli from a chick got into your intestinal tract, and was in sufficient numbers and virulence to cause disease, the symptoms would be primarily intestinal in nature. Both salmonella and ecoli can be treated with antibiotics in both the chick and the human. Additional modes of transmission are from improperly washed vegetables in a garden that utilized chicken (or cattle for that matter) manure.
All of that said, most people will not catch a zoonotic disease from their livestock or pets and there is some research that links too sterile environments with weaker immune systems. Afterall, in years past farm kids only washed up just before dinner. HOWEVER, if a person is immune compromised they cannot be too careful (cancer, autoimmune disease, the very old, the very young, those recovering from other illnesses, etc).
Here is are some links to zoonotic diseases and their prevention (some are a little extreme in my opinion, but if you want to be as safe as possible...):
http://depts.washington.edu/rubelab...ASE PREVENTION WHEN WORKING WITH POULTRY.html
http://www.hpa.org.uk/Topics/InfectiousDiseases/InfectionsAZ/Zoonoses/TableZoonoticDiseases/
http://edis.ifas.ufl.edu/ps019
http://www.cdc.gov/healthypets/animals/birds.htm
http://www.kingcounty.gov/healthservices/health/ehs/zoonotics/diseases.aspx
A special note on listeriosis...pregnant women are 20% more likely to get this than non-pregnant persons and are also more likely to die from the infection (the fetus is especially susceptable as well). They are, however, more likely to catch this from eating deli meat or fresh cheeses than from a chicken...
I am not a chicken disease expert, but a people disease expert... I hope everyone gets healthy and is cautious without becoming neurotic (and unable to enjoy your chickens).