Comparison of the fecal microbiota during variable collection and storage methods

Sample collection from in-patients can be challenging and potentially impacted by collection method variability. We used 16S rRNA-based sequencing to compare the microbiota profiles of variably stored and collected samples. Stool from three different patients were evaluated at different freezing and handling conditions. Additionally, rectal swabs were compared to a stool sample, collected from eight different patients over the course of 24 hours. Storage conditions did not significantly impact the microbial community, and only minor differences were observed between rectal swabs and stool. We conclude that fecal microbial communities did not change substantially after various transport and storage conditions. Rectal swabs are a suitable alternative for assessing the microbiota when fresh stool is not easily obtained.