The relative abundance of denitrifying bacteria inferred by paprica was higher in oysters and shells than in sediments suggesting that oysters act as hotspots for denitrification in the marine environment.
Paprica describes community structure through phylogenetic placement with pplacer [39] onto a reference tree created from all completed genome in Genbank [40].
DNA was extracted from 0.25–0.30 grams of digestive gland using the Qiagen DNA stool mini kit (Qiagen, Hilden, Germany) following the pathogen detection protocol.