Comparison of in Clinic-Based Fecal Microbiome Collection Techniques for Increase in Study Participation and Utilization of Microbiome Analysis
Open Journal of Urology(2019)
摘要
We compared the collection techniques of fecal specimens for DNA extractionand fecal microbiome analysis by utilizing the glove from a standard-of-care digital rectal exam (DRE) and the rectal swab from apre-prostate biopsy bacterial rectal culture collected in clinical care settings.DNA yield from the swab technique compared to the glove technique yieldedsimilar amounts of DNA (18.1 vs. 13.1 ng/μL, p = 0.06), slightly favoring theswab technique. However, utilizing DNA yield cutoffs of 15 ng/μL (37% vs.29%, p = 0.18) and 30 ng/μL (15% and 9%, p = 0.16), we identified no differencesin yield between the swab versus glove technique, respectively. Absorbancevalues for overall DNA quality were significantly different in favor ofthe glove technique (mean 1.6 vs. 2.0, p u003c 0.001). Using an absorbance valueof 1.5 as an indication of DNA quality, only 26% (19/91) met the cutoff valueusing the swab group compared to 47.3% (53/112) if the glove technique wasused (p u003c 0.001). Similar results occurred for the RNA quality with an absorbancevalue cutoff of 2.0 (2.2% vs. 30.4%, p u003c 0.001). To increase samplingfeasibility and improve population sampling, gloves used from a DRE may beutilized as a consistent and efficient fecal DNA collection technique for fecalmicrobiome analysis. DNA yield and quality from the glove technique arecomparable to—if not better than—rectal swab collection.
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