Table 2.
Microbial community metrics in TA and mBAL samples, including differences between subjects with pneumonia and those with respiratory failure due to etiologies other than respiratory infection, and abundance differences for common oropharyngeal microbes by genus rpM between all TA and mBAL samples, irrespective of PNA group, calculated using Wilcoxon rank sum
| TA |
mBAL |
||||
|---|---|---|---|---|---|
| Metric | Median (IQR) | PNA-pos vs. PNA-neg | Median (IQR) | PNA-pos vs. PNA-neg | mBAL vs. TA (All Samples) |
| Richness | 6.00 (4.00–9.00) | P = 6.5 × 10−2 | 8.00 (4.00–13.50) | P = 1.2 × 10−3 | P = 4.6 × 10−2 |
| Shannon diversity | 1.05 (0.71–1.55) | P = 4.7 × 10−2 | 1.45 (0.74–2.05) | P = 5.2 × 10−6 | P = 5.7 × 10−2 |
| TA | mBAL | ||
|---|---|---|---|
| Genus | Mean rpM (IQR) | Mean rpM (IQR) | mBAL vs. TA |
| Prevotella | 0.07 (0.00–0.06) | 0.02 (0.00–0.03) | P = 0.15 |
| Veillonella | 0.03 (0.00–0.02) | 0.03 (0.00–0.02) | P = 0.99 |
| Streptococcus | 0.20 (0.00–0.33) | 0.18 (0.00–0.34) | P = 0.88 |
| Fusobacterium | 0.02 (0.00–0.00) | 0.01 (0.00–0.00) | P = 0.53 |
| Rothia | 0.03 (0.00–0.03) | 0.01 (0.00–0.00) | P = 0.31 |
| Neisseria | 0.04 (0.00–0.02) | 0.03 (0.00–0.02) | P = 0.72 |
IQR, interquartile range; mBAL, mini-bronchial alveolar lavage; PNA-neg, pneumonia-negative; PNA-pos, pneumonia-positive; rpM, reads per million reads mapped; TA, tracheal aspirate.