Objective: verify the prevalence of Human Papillomavirus in pregnant women and the concordance of detection between urine and cervical-vaginal samples. Methods: samples were collected from 110 women in the second trimester of pregnancy in the city of Coari, Amazonas. Detection of the virus was performed using Polymerase Chain Reaction using the PGMY09/11 primer set. Results: 24.6% of pregnant women were infected, with the virus present in 11.8% of urine samples and in 23.6% of cervical-vaginal samples. There was 86.4% agreement and a moderate agreement rate between biological samples (kappa = 0.543). A statistically significant association was found between Human Papillomavirus infection and the variables: age of pregnant women (p= 0.014), first pregnancy (p= 0.027) and nulliparity (p= 0.046). Conclusions: the cervical-vaginal sample proved to be more suitable for detecting the virus and the high prevalence found reinforces the need to closely monitor this infection during pregnancy.
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