The most common pathogen-animal pair was Salmonella and poultry, followed by Cryptosporidium and ruminants and Salmonella and turtles.
Surveillance data from 33 nations show that resistance to ampicillin, tetracyclines, and sulfonamides remains "persistently high" in Salmonella and Campylobacter.
Researchers found that 41% of Campylobacter isolates from poultry in Kenya and Tanzania were resistant to 3 or more antibiotics.
Of backyard flock samples, 22% tested positive for Campylobacter, compared with 12% of the farm samples, and many were antibiotic-resistant.
Raw Farm (formerly Organic Pastures) of Fresno, California, has been linked to the outbreak.
The incidence of domestically acquired campylobacteriosis, pathogenic E coli infection, yersiniosis, vibriosis, and cyclosporiasis increased.
The illnesses were caused by Campylobacter, Salmonella, E coli, or Listeria monocytogenes.
The agency is urging member states to be alert for cases of drug-resistant Campylobacter in men who have sex with men.
Data on Salmonella and Campylobacter bacteria from people and food-producing animals show high levels of resistance to commonly used antibiotics.
The new detection comes just a week after the CDC warned health providers about a rise in imported measles cases.
