Table 1.
Summary of DNA extraction methods examined in this study.
Fig 1.
Normalised DNA yield (ng/μL) from (A) plaque and (B) saliva (mean ± SEM). M: MoBio PowerSoil® DNA Isolation Kit, Q: QIAamp® DNA Mini Kit, Z: Zymo Bacterial/Fungal DNA Mini PrepTM, P: Phenol:chloroform-based DNA isolation. DNA extraction methods not linked by the same letter are significantly different to each other (Tukey-Kramer p ≤ 0.05).
Fig 2.
Non-metric multidimensional scaling (MDS) plots comparing relative unweighted UniFrac phylogenetic distances of bacterial communities in (A) plaque and (B) saliva across the four DNA extraction methods.
Table 2.
Alpha diversity measurements (mean ± SEM) for triplicate data from each of the four DNA extraction methods, amplified with 16S rRNA gene primers (A) and ITS1 primers (B).
Fig 3.
Taxa plots summarising the relative abundance of taxon-assigned OTUs identified in pooled homogenates for (A) bacterial genera in plaque; (B) fungal genera in plaque; (C) bacterial genera in saliva and (D) fungal genera in saliva. Each bar represents sequencing from three replicates, rarefied to 6000 sequences per sample for bacterial genera and 959 for fungal genera, with replicates that did not meet these criteria excluded. M: MoBio PowerSoil® DNA Isolation Kit, Q: QIAamp® DNA Mini Kit, Z: Zymo Bacterial/Fungal DNA Mini PrepTM, P: Phenol:chloroform-based DNA isolation.