Table 2 Proportional abundance and taxonomic assignment of dominant OTU at each timepoint
From: Composition and dynamics of the respiratory tract microbiome in intubated patients
Subject | DPI | Abundance | BLAST assignment | Culture |
|---|---|---|---|---|
1 | 0 | 0.334 | Prevotella denticola | Rare yeast |
1 | 3 | 0.748 | Prevotella denticola | NA |
1 | 5 | 0.482 | Prevotella denticola | Candida albicans |
2 | 0 | 0.296 | Prevotella melaninogenica | NA |
2 | 2 | 0.190 | Ureaplasma parvum | “Few mouth flora” |
2 | 4 | 0.419 | Ureaplasma parvum | “Few mouth flora” |
2 | 7 | 0.954 | Ureaplasma parvum | NA |
3 | 0 | 0.602 | Streptococcus salivarius subsp. thermophilus | NA |
4 | 0 | 0.084 | Neisseria sicca | “Few mouth flora” |
5 | 0 | 0.816 | Staphylococcus aureus subsp. aureus | NA |
5 | 2 | 0.965 | Staphylococcus aureus subsp. aureus | NA |
5 | 5 | 0.960 | Staphylococcus aureus subsp. aureus | Many MRSA; few Klebsiella pneumoniae |
5 | 7 | 0.962 | Staphylococcus aureus subsp. aureus | NA |
5 | 9 | 0.960 | Staphylococcus aureus subsp. aureus | NA |
6 | 0 | 0.717 | Moraxella catarrhalis | NA |
6 | 1 | 0.533 | Lactobacillus gasseri | NA |
6 | 2 | 0.664 | Lactobacillus gasseri | Few MSSA; few yeast |
6 | 4 | 0.525 | Staphylococcus aureus subsp. aureus | NA |
7 | 0 | 0.517 | Streptococcus dentisani | “Rare mouth flora” |
7 | 1 | 0.869 | Streptococcus dentisani | NA |
7 | 2 | 0.189 | Prevotella melaninogenica | NA |
7 | 5 | 0.310 | Mycoplasma salivarium | “Few mouth flora” |
7 | 7 | 0.248 | Mycoplasma salivarium | NA |
7 | 12 | 0.138 | Neisseria sicca | NA |
7 | 14 | 0.333 | Ureaplasma parvum | NA |
8 | 0 | 0.429 | Staphylococcus aureus subsp. aureus | NA |
9 | 0 | 0.351 | Propionibacterium acnes | No growth |
10 | 0 | 0.884 | Staphylococcus aureus subsp. aureus | MRSA |
10 | 1 | 0.937 | Staphylococcus aureus subsp. aureus | NA |
10 | 4 | 0.187 | Staphylococcus aureus subsp. aureus | NA |
11 | 0 | 0.512 | Granulicatella adiacens | “Many mouth flora” |
11 | 1 | 0.200 | Prevotella melaninogenica | NA |
12 | 0 | 0.886 | Pseudomonas aeruginosa | Moderate Pseudomonas aeruginosa |
13 | 0 | 0.232 | Propionibacterium acnes | Few yeast |
13 | 1 | 0.334 | Propionibacterium acnes | NA |
14 | 0 | 0.203 | Haemophilus influenzae | “Few mouth flora” |
14 | 1 | 0.711 | Haemophilus influenzae | NA |
15 | 0 | 0.236 | Propionibacterium acnes | “Few mouth flora” |
15 | 1 | 0.960 | Enterococcus faecalis | NA |
15 | 4 | 0.960 | Enterococcus faecalis | NA |
15 | 6 | 0.898 | Enterococcus faecalis | NA |
15 | 8 | 0.928 | Enterococcus faecalis | Few yeast |