TABLE 4.
Measures of alpha diversity (phylogenetic diversity, identified species, Chao1 and Shannon) in strata of primary and persistent endodontic infections, with and without symptoms, using an oral health-specific (HOMD) and a generic (Greengenes) database.
| Primary infections | Persistent infections | ||||
|---|---|---|---|---|---|
| Group A | Group B | Group C | Group D | Comp* | |
| Asymptomatic | Symptomatic | Asymptomatic | Symptomatic | ||
| HOMD | |||||
| Phylogenetic Diversity, mean (95% CI) | 5.9 (4.1–7.8) | 7.4 (5.2–9.6) | 9.2 (6.2–12.2) | 8.2 (6.6–9.9) | C>A1 |
| Species, median (range) | 28.0 (7–103) | 42.5 (16–152) | 64.5 (12–172) | 53.0 (21–97) | C>A1 |
| Chao1, mean (95% CI) | 54.5 (31.3–77.7) | 72.5 (46.7–98.3) | 95.1 (58.3–132) | 75.6 (58.3–92.9) | C>A1 |
| Shannon, mean (95% CI) | 2.08 (1.34–2.81) | 2.94 (2.28–3.59) | 2.95 (1.96–3.94) | 3.32 (2.85–3.78) | B>A1 D>A 2 |
| Greengenes database | |||||
| Phylogenetic Diversity, mean (95% CI) | 10.4 (7.2–13.5) | 14.5 (7.4–21.7) | 18.9 (10.5–27.3) | 15.4 (11.7–19.0) | C>A1 |
| Species, median (range) | 53 (13–171) | 69.5 (37–647) | 103 (16–378) | 99.5 (31–246) | |
| Chao1, mean (95% CI) | 103 (63.8–142) | 198 (5.4–390) | 214 (109–319) | 176 (122–230) | |
| Shannon, mean (95% CI) | 2.33 (1.55–3.12) | 3.38 (2.47–4.29) | 3.46 (2.21–4.71) | 3.44 (2.94–3.93) | C>A1 D>A1 |
*
Pairwise comparisons were based on a mixed-effects linear regression model accounting for clustering of observations within samples, and multiple comparison (Bonferroni)-corrected contrast of predicted marginal effects
1
Nominally significant difference (unadjusted P<0.05)
2
Bonferroni-corrected significant difference (adjusted P<0.05)