Prevalence of feline upper respiratory tract pathogens and risk factors for clinical disease and final outcomes in an RSPCA shelter in Queensland, Australia

Abstract Introduction Feline respiratory tract infection poses a serious challenge in animal shelters. Potential risk factors include pathogens introduced through animals entering the shelter. We aimed to determine the proportion of animals shedding feline upper respiratory tract (URT) pathogens at the time of entry and to assess how this contributed to the burden of clinical disease and final outcomes. Methods Oropharyngeal and conjunctival swabs were collected from incoming cats over 11 months and tested using real‐time PCR. The prevalence and distribution of pathogens were reported; causal associations with clinical disease and shelter outcomes were assessed using Bayesian generalised regression models. Results On admission, 43% ( n = 86) cats were shedding one or more pathogens (feline herpes virus, feline calici virus, Mycoplasma felis , Chlamydia felis and Bordetella bronchiseptica ). Shedding was somewhat associated with subsequent clinical disease but not with risk of euthanasia. Animals placed into foster care were less likely (odds ratio [OR] 0.27, Bayesian credible interval [CI] 0.09‒0.78) and those enrolled into behavioural rehabilitation programmes were more likely to develop disease (OR 5, CI 2.4‒11). Kittens had a delayed time to onset of disease (daily hazard 0.39, CI 0.13‒1.2). Geriatric animals (OR 4.1, CI 1.8‒10) and those with comorbidities (OR 8.8, CI 3.5‒25) were most likely to be euthanased. Conclusions While a substantial proportion of animals were shedding pathogens on entry, animal characteristics (age and behaviour) and shelter operations (foster care) were more important in impacting the shelter's burden of clinical feline URT disease.