From: Biogeography of the ecosystems of the healthy human body
Total taxa | Mean ± SE | ||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Body habitat | Project | Subjects (n) | Reads | Phylum | Class | Order | Family | Genus | Reads (m ± sd) | Phylum | Class | Order | Family | Genus | Genus_1000a |
Gut | |||||||||||||||
Stool | HMP | 209 | 1774406 | 13 | 23 | 38 | 76 | 203 | 8490 ± 8308.1 | 6 ± 0.1 | 10 ± 0.2 | 12 ± 0.3 | 25 ± 0.5 | 54 ± 1.2 | 32 ± 0.7 |
Stool (preterm) | NEC | 10 | 84574 | 6 | 12 | 21 | 39 | 90 | 8457 ± 3505.8 | 4 ± 0.3 | 5 ± 0.4 | 7 ± 0.6 | 12 ± 1.1 | 26 ± 2.5 | 14 ± 0.7 |
Nasal | |||||||||||||||
Anterior nares | HMP | 166 | 1178682 | 20 | 38 | 75 | 165 | 457 | 7100 ± 4031.8 | 7 ± 0.1 | 12 ± 0.2 | 17 ± 0.3 | 34 ± 0.8 | 53 ± 1.5 | 27 ± 0.9 |
Oral | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â |
Buccal mucosa | HMP | 186 | 1542387 | 15 | 25 | 46 | 99 | 241 | 8292 ± 5166.5 | 7 ± 0.1 | 12 ± 0.2 | 17 ± 0.2 | 33 ± 0.5 | 59 ± 1.1 | 33 ± 0.7 |
Hard palate | HMP | 193 | 1551365 | 19 | 34 | 62 | 127 | 301 | 8038 ± 4518.7 | 7 ± 0.1 | 13 ± 0.2 | 18 ± 0.3 | 36 ± 0.5 | 63 ± 1 | 39 ± 0.6 |
Keratinized gingiva | HMP | 199 | 1553381 | 13 | 22 | 37 | 88 | 218 | 7806 ± 4591.9 | 6 ± 0.1 | 11 ± 0.1 | 14 ± 0.2 | 25 ± 0.4 | 41 ± 0.9 | 23 ± 0.5 |
Palatine tonsil | HMP | 199 | 1648985 | 15 | 25 | 47 | 93 | 242 | 8286 ± 5068.5 | 8 ± 0.1 | 14 ± 0.2 | 18 ± 0.3 | 35 ± 0.5 | 62 ± 1 | 40 ± 0.6 |
Saliva | HMP | 182 | 1335119 | 17 | 29 | 49 | 99 | 266 | 7336 ± 4083.7 | 9 ± 0.1 | 15 ± 0.2 | 20 ± 0.3 | 39 ± 0.5 | 72 ± 0.9 | 50 ± 0.6 |
Subgingival plaque | HMP | 201 | 1603380 | 14 | 23 | 42 | 84 | 244 | 7977 ± 4364.2 | 8 ± 0.1 | 14 ± 0.2 | 19 ± 0.2 | 38 ± 0.4 | 68 ± 0.9 | 46 ± 0.6 |
Supragingival plaque | HMP | 208 | 1677580 | 15 | 24 | 40 | 77 | 219 | 8065 ± 4539.6 | 8 ± 0.1 | 13 ± 0.2 | 17 ± 0.3 | 35 ± 0.5 | 62 ± 0.9 | 41 ± 0.7 |
Throat | HMP | 186 | 1455561 | 18 | 29 | 53 | 119 | 322 | 7826 ± 3784.6 | 8 ± 0.1 | 13 ± 0.2 | 18 ± 0.3 | 36 ± 0.5 | 63 ± 1 | 41 ± 0.6 |
Tongue dorsum | HMP | 206 | 1769242 | 13 | 21 | 35 | 74 | 185 | 8589 ± 7921.7 | 7 ± 0.1 | 13 ± 0.2 | 16 ± 0.2 | 32 ± 0.4 | 56 ± 0.8 | 35 ± 0.5 |
Skin | |||||||||||||||
Antecubital fossa (left) | HMP | 75 | 470729 | 21 | 41 | 78 | 168 | 501 | 6276 ± 4981.6 | 8 ± 0.2 | 13 ± 0.4 | 23 ± 0.7 | 48 ± 1.7 | 81 ± 3.9 | 56 ± 2.5 |
Antecubital fossa (right) | HMP | 87 | 541278 | 21 | 42 | 81 | 186 | 534 | 6222 ± 5348.3 | 8 ± 0.2 | 14 ± 0.4 | 23 ± 0.8 | 48 ± 1.9 | 80 ± 3.9 | 52 ± 2.4 |
Retroauricular crease (left) | HMP | 181 | 1762310 | 20 | 38 | 75 | 162 | 474 | 9737 ± 6158.1 | 7 ± 0.1 | 11 ± 0.2 | 17 ± 0.4 | 31 ± 1 | 47 ± 1.9 | 19 ± 1.0 |
Retroauricular crease (right) | HMP | 189 | 1710301 | 23 | 42 | 79 | 173 | 484 | 9049 ± 4839.4 | 6 ± 0.1 | 11 ± 0.2 | 16 ± 0.4 | 30 ± 0.9 | 44 ± 1.7 | 19 ± 1.0 |
Ocular | |||||||||||||||
Conjunctiva | The Gambia | 15 | 158577 | 20 | 37 | 70 | 165 | 409 | 10571 ± 10554. | 8 ± 0.8 | 14 ± 0.9 | 21 ± 1.4 | 37 ± 2.8 | 81 ± 8.7 | 54 ± 5.7 |
Urogenital | |||||||||||||||
Mid vagina | HMP | 89 | 732322 | 10 | 19 | 36 | 75 | 218 | 8228 ± 6675.7 | 5 ± 0.1 | 8 ± 0.2 | 11 ± 0.4 | 20 ± 0.8 | 29 ± 1.5 | 12 ± 0.9 |
Posterior fornix | HMP | 89 | 822111 | 10 | 18 | 31 | 70 | 176 | 9237 ± 7652 | 5 ± 0.1 | 7 ± 0.2 | 9 ± 0.4 | 15 ± 0.7 | 20 ± 1.2 | 7 ± 0.6 |
Vaginal introitus | HMP | 80 | 660867 | 13 | 20 | 35 | 75 | 203 | 8261 ± 4389.5 | 5 ± 0.1 | 9 ± 0.2 | 12 ± 0.4 | 23 ± 0.8 | 34 ± 1.5 | 16 ± 0.9 |
Urine | Urethritis | 18 | 152360 | 23 | 38 | 64 | 131 | 312 | 8464 ± 4694.9 | 9 ± 0.5 | 14 ± 1.4 | 24 ± 2.5 | 49 ± 5.6 | 61 ± 5.2 | 38 ± 4.8 |
Penis | Urethritis | 18 | 203866 | 20 | 35 | 64 | 135 | 333 | 11326 ± 3523.4 | 8 ± 0.7 | 14 ± 1 | 22 ± 1.9 | 42 ± 3.3 | 68 ± 5.5 | 30 ± 3.0 |
Total | All projects | 279 | 24385112 | 30 | 109 | 125 | 493 | 929 | 8173 ± 5556 | ND | ND | ND | ND | ND | ND |