Table 1. Non-conventional taxa significantly overrepresented in BALs relative to controls.
See also Table S6.
| BALs without CF Pathogens1 | ||||
|---|---|---|---|---|
| No non-conventional taxa were significantly overrepresented in BALs without CF pathogens as compared to controls2 | ||||
| BALs with CF Pathogens3 | ||||
| Taxa overrepresented vs. controls2 | Relative abundance in controls3 | Relative abundance in BALs4 | Fold difference5 | p value6 |
| Streptococcus | 0.88% | 4.90% | 3 | 1.9 × 10−4 |
| Prevotella | 0.40% | 2.23% | 2 | 1.6 × 10−5 |
| Veillonella | 0.07% | 0.48% | 3 | 5.9 × 10−7 |
| Alcaligenaceae | 0.00% | 1.72% | 19 | 9.9 ×10−19 |
1
BALs considered “without CF pathogens” contained less than 150% maximum value in instrument and reagent controls (i.e. <164 CF pathogen genome copies/ml).
2
Based on results of negative binomial test (see text)
3
BALs considered “with CF pathogens” contained more than 150% of the maximum value in instrument and reagent controls (i.e. >164 CF pathogen genome copies/ml).
3
Mean relative abundance of OTU in all catheter pre-washes, scope pre-washes, and reagent controls studied.
4
Mean relative abundance of OTU in all BALs studied.
5
Fold difference calculated by dividing reads of indicated taxa in BALs by level in controls.
6
p-values are for taxa abundance in BAL relative to controls.