| Taxon ID | Genus △ | Species | Status | Body Site | Flag | Taxon Link | Genome Link | Genome Size |
| HMT-921 | Paenibacillus | glucanolyticus | Named | Unassigned | | | | 5.90 - 6.57 Mbps |
| HMT-786 | Paenibacillus | phoenicis | Named | Unassigned | | | | 5.10 Mbps |
| HMT-048 | Paenibacillus | sp. HMT 048 | Phylotype | Unassigned | | | | |
| HMT-104 | Paracoccus | yeei | Named | Unassigned | | | | 4.83 Mbps |
| HMT-586 | Parascardovia | denticolens | Named | Unassigned | | | | 1.89 - 2.00 Mbps |
| HMT-111 | Parvimonas | micra | Named | Oral | | | | 1.70 Mbps |
| HMT-110 | Parvimonas | sp. HMT 110 | Unnamed | Oral | | | | 1.56 Mbps |
| HMT-393 | Parvimonas | sp. HMT 393 | Unnamed | Oral | | | | 1.48 Mbps |
| HMT-318 | Pedobacter | sp. HMT 318 | Phylotype | Unassigned | | | | |
| HMT-321 | Pedobacter | sp. HMT 321 | Phylotype | Unassigned | | | | |
| HMT-933 | Pedobacter | sp. HMT 933 | Phylotype | Unassigned | | | | |
| HMT-848 | Peptidiphaga | gingivicola | Named | Oral | | | | 2.52 Mbps |
| HMT-183 | Peptidiphaga | sp. HMT 183 | Unnamed | Oral | | | | 2.37 Mbps |
| HMT-167 | Peptococcus | sp. HMT 167 | Lost | Oral | | | | |
| HMT-168 | Peptococcus | sp. HMT 168 | Phylotype | Oral | | | | |
| HMT-113 | Peptoniphilaceae [G-1] | bacterium HMT 113 | Unnamed | Oral | | | | 2.09 Mbps |
| HMT-790 | Peptoniphilaceae [G-2] | bacterium HMT 790 | Phylotype | Unassigned | | | | |
| HMT-929 | Peptoniphilaceae [G-3] | bacterium HMT 929 | Unnamed | Unassigned | | | | 1.65 Mbps |
| HMT-548 | Peptoniphilus | asaccharolyticus | Named | Unassigned | | | | 2.23 Mbps |
| HMT-109 | Peptoniphilus | harei | Named | Unassigned | | | | 1.78 - 1.90 Mbps |
| HMT-840 | Peptoniphilus | indolicus | Named | Unassigned | | | | 2.24 Mbps |
| HMT-836 | Peptoniphilus | lacrimalis | Named | Oral | | | | 1.63 - 1.85 Mbps |
| HMT-187 | Peptoniphilus | sp. HMT 187 | Unnamed | Unassigned | | | | 1.88 Mbps |
| HMT-375 | Peptoniphilus | sp. HMT 375 | Unnamed | Unassigned | | | | 1.95 Mbps |
| HMT-386 | Peptoniphilus | sp. HMT 386 | Unnamed | Unassigned | | | | 1.57 Mbps |
| HMT-383 | Peptostreptococcaceae [XI][G-1] | bacterium HMT 383 | Phylotype | Unassigned | | | | |
| HMT-105 | Peptostreptococcaceae [XI][G-1] | [Eubacterium] infirmum | Named | Oral | | | | 1.91 Mbps |
| HMT-467 | Peptostreptococcaceae [XI][G-1] | [Eubacterium] sulci | Named | Oral | | | | 1.74 Mbps |
| HMT-091 | Peptostreptococcaceae [XI][G-2] | bacterium HMT 091 | Phylotype | Oral | | | | |
| HMT-495 | Peptostreptococcaceae [XI][G-3] | bacterium HMT 495 | Phylotype | Oral | | | | |
| HMT-950 | Peptostreptococcaceae [XI][G-3] | bacterium HMT 950 | Phylotype | Unassigned | | | | |
| HMT-103 | Peptostreptococcaceae [XI][G-4] | bacterium HMT 103 | Phylotype | Oral | | | | |
| HMT-369 | Peptostreptococcaceae [XI][G-4] | bacterium HMT 369 | Phylotype | Oral | | | | |
| HMT-493 | Peptostreptococcaceae [XI][G-5] | bacterium HMT 493 | Phylotype | Unassigned | | | | |
| HMT-759 | Peptostreptococcaceae [XI][G-5] | [Eubacterium] saphenum | Named | Oral | | | | 1.08 Mbps |
| HMT-673 | Peptostreptococcaceae [XI][G-6] | [Eubacterium] minutum | Named | Oral | | | | 1.91 Mbps |
| HMT-694 | Peptostreptococcaceae [XI][G-6] | [Eubacterium] nodatum | Named | Oral | | | | 1.83 Mbps |
| HMT-081 | Peptostreptococcaceae [XI][G-7] | bacterium HMT 081 | Unnamed | Oral | | | | 2.58 Mbps |
| HMT-922 | Peptostreptococcaceae [XI][G-7] | bacterium HMT 922 | Phylotype | Oral | | | | |
| HMT-106 | Peptostreptococcaceae [XI][G-7] | [Eubacterium] yurii subsp. schtitka | Named | Oral | | | | |
| HMT-377 | Peptostreptococcaceae [XI][G-7] | [Eubacterium] yurii subsps. yurii & margaretiae | Named | Oral | | | | 2.51 Mbps |
| HMT-382 | Peptostreptococcaceae [XI][G-8] | bacterium HMT 382 | Phylotype | Unassigned | | | | |
| HMT-557 | Peptostreptococcaceae [XI][G-9] | [Eubacterium] brachy | Named | Oral | | | | 1.54 Mbps |
| HMT-542 | Peptostreptococcus | anaerobius | Named | Oral | | | | 1.99 - 2.11 Mbps |
| HMT-112 | Peptostreptococcus | stomatis | Named | Oral | | | | 1.99 Mbps |
| HMT-007 | Porphyrobacter | tepidarius | Named | Unassigned | | | | 3.22 Mbps |
| HMT-547 | Porphyromonas | asaccharolytica | Named | Unassigned | | | | 2.19 - 2.20 Mbps |
| HMT-283 | Porphyromonas | catoniae | Named | Oral | | | | 2.04 - 2.10 Mbps |
| HMT-273 | Porphyromonas | endodontalis | Named | Oral | | | | 2.06 Mbps |
| HMT-619 | Porphyromonas | gingivalis | Named | Oral | | | | 1.78 - 2.48 Mbps |
| HMT-279 | Porphyromonas | pasteri | Named | Oral | | | | 2.27 Mbps |
| HMT-275 | Porphyromonas | sp. HMT 275 | Phylotype | Oral | | | | |
| HMT-277 | Porphyromonas | sp. HMT 277 | Phylotype | Oral | | | | |
| HMT-278 | Porphyromonas | sp. HMT 278 | Unnamed | Oral | | | | 2.16 Mbps |
| HMT-284 | Porphyromonas | sp. HMT 284 | Lost | Oral | | | | |
| HMT-285 | Porphyromonas | sp. HMT 285 | Phylotype | Oral | | | | |
| HMT-930 | Porphyromonas | sp. HMT 930 | Phylotype | Oral | | | | |
| HMT-785 | Porphyromonas | uenonis | Named | Unassigned | | | | 2.24 - 2.26 Mbps |
| HMT-943 | Prevotella | aurantiaca | Named | Oral | | | | 3.00 Mbps |
| HMT-553 | Prevotella | baroniae | Named | Oral | | | | 3.02 - 3.13 Mbps |
| HMT-556 | Prevotella | bivia | Named | Oral | | | | 2.41 - 2.58 Mbps |
| HMT-560 | Prevotella | buccae | Named | Oral | | | | 3.28 - 3.36 Mbps |
| HMT-562 | Prevotella | buccalis | Named | Unassigned | | | | 2.76 - 3.03 Mbps |
| HMT-583 | Prevotella | dentalis | Named | Oral | | | | 3.29 Mbps |
| HMT-291 | Prevotella | denticola | Named | Oral | | | | 2.94 - 3.18 Mbps |
| HMT-600 | Prevotella | enoeca | Named | Oral | | | | 2.78 - 2.86 Mbps |
| HMT-782 | Prevotella | fusca | Named | Oral | | | | 3.17 - 3.26 Mbps |
| HMT-298 | Prevotella | histicola | Named | Oral | | | | 2.95 - 2.99 Mbps |
| HMT-643 | Prevotella | intermedia | Named | Oral | | | | 2.56 - 3.15 Mbps |
| HMT-658 | Prevotella | loescheii | Named | Oral | | | | 3.51 Mbps |
| HMT-289 | Prevotella | maculosa | Named | Oral | | | | 3.15 - 3.31 Mbps |
| HMT-665 | Prevotella | marshii | Named | Oral | | | | 2.52 - 2.56 Mbps |
| HMT-469 | Prevotella | melaninogenica | Named | Oral | | | | 2.98 - 3.29 Mbps |
| HMT-378 | Prevotella | micans | Named | Oral | | | | 2.43 - 2.49 Mbps |
| HMT-685 | Prevotella | multiformis | Named | Oral | | | | 3.06 Mbps |
| HMT-794 | Prevotella | multisaccharivorax | Named | Unassigned | | | | 3.39 Mbps |
| HMT-299 | Prevotella | nanceiensis | Named | Oral | | | | 2.48 Mbps |
| HMT-693 | Prevotella | nigrescens | Named | Oral | | | | 2.67 - 3.02 Mbps |
| HMT-705 | Prevotella | oralis | Named | Oral | | | | 2.84 - 2.99 Mbps |
| HMT-311 | Prevotella | oris | Named | Oral | | | | 3.06 - 3.25 Mbps |
| HMT-288 | Prevotella | oulorum | Named | Oral | | | | 2.81 - 2.83 Mbps |
| HMT-714 | Prevotella | pallens | Named | Oral | | | | 3.13 Mbps |
| HMT-303 | Prevotella | pleuritidis | Named | Oral | | | | 2.71 Mbps |
| HMT-781 | Prevotella | saccharolytica | Named | Oral | | | | 2.85 - 2.98 Mbps |
| HMT-307 | Prevotella | salivae | Named | Oral | | | | 3.10 - 3.27 Mbps |
| HMT-885 | Prevotella | scopos | Named | Oral | | | | 3.18 - 3.30 Mbps |
| HMT-795 | Prevotella | shahii | Named | Oral | | | | 3.49 Mbps |
| HMT-292 | Prevotella | sp. HMT 292 | Phylotype | Oral | | | | |
| HMT-293 | Prevotella | sp. HMT 293 | Phylotype | Oral | | | | |
| HMT-300 | Prevotella | sp. HMT 300 | Phylotype | Oral | | | | |
| HMT-301 | Prevotella | sp. HMT 301 | Phylotype | Oral | | | | |
| HMT-304 | Prevotella | sp. HMT 304 | Phylotype | Oral | | | | |
| HMT-305 | Prevotella | sp. HMT 305 | Phylotype | Oral | | | | |
| HMT-306 | Prevotella | sp. HMT 306 | Unnamed | Oral | | | | 2.95 Mbps |
| HMT-309 | Prevotella | sp. HMT 309 | Phylotype | Oral | | | | |
| HMT-313 | Prevotella | sp. HMT 313 | Unnamed | Oral | | | | 3.92 Mbps |
| HMT-314 | Prevotella | sp. HMT 314 | Unnamed | Oral | | | | 3.19 Mbps |
| HMT-315 | Prevotella | sp. HMT 315 | Phylotype | Oral | | | | |
| HMT-317 | Prevotella | sp. HMT 317 | Unnamed | Oral | | | | 4.10 Mbps |
| HMT-376 | Prevotella | sp. HMT 376 | Unnamed | Oral | | | | 3.02 Mbps |
| HMT-396 | Prevotella | sp. HMT 396 | Phylotype | Oral | | | | |
| HMT-443 | Prevotella | sp. HMT 443 | Phylotype | Oral | | | | |
| HMT-472 | Prevotella | sp. HMT 472 | Unnamed | Oral | | | | 3.64 Mbps |
| HMT-475 | Prevotella | sp. HMT 475 | Unnamed | Oral | | | | |
| HMT-515 | Prevotella | sp. HMT 515 | Phylotype | Oral | | | | |
| HMT-526 | Prevotella | sp. HMT 526 | Phylotype | Oral | | | | |
| HMT-820 | Prevotella | sp. HMT 820 | Unnamed | Oral | | | | 3.20 Mbps |
| HMT-942 | Prevotella | sp. HMT 942 | Phylotype | Oral | | | | |
| HMT-572 | Prevotella | veroralis | Named | Oral | | | | 2.83 - 2.99 Mbps |
| HMT-915 | Propionibacteriaceae [G-1] | bacterium HMT 915 | Phylotype | Oral | | | | |
| HMT-192 | Propionibacteriaceae [G-2] | bacterium HMT 192 | Unnamed | Unassigned | | | | 2.71 Mbps |
| HMT-191 | Propionibacterium | acidifaciens | Named | Oral | | | | 3.02 - 3.04 Mbps |
| HMT-676 | Proteus | mirabilis | Named | Unassigned | | | | 3.85 - 4.10 Mbps |
| HMT-536 | Pseudomonas | aeruginosa | Named | Unassigned | | | | 6.26 - 6.87 Mbps |
| HMT-612 | Pseudomonas | fluorescens | Named | Unassigned | | | | 6.02 - 7.07 Mbps |
| HMT-344 | Pseudomonas | luteola | Named | Unassigned | | | | 5.42 Mbps |
| HMT-834 | Pseudomonas | otitidis | Named | Unassigned | | | | 6.30 Mbps |
| HMT-740 | Pseudomonas | pseudoalcaligenes | Named | Unassigned | | | | 4.69 - 6.68 Mbps |
| HMT-032 | Pseudomonas | sp. HMT 032 | Phylotype | Unassigned | | | | |
| HMT-477 | Pseudomonas | stutzeri | Named | Unassigned | | | | 4.17 - 4.71 Mbps |
| HMT-538 | Pseudoramibacter | alactolyticus | Named | Oral | | | | 2.36 Mbps |
| HMT-357 | Pyramidobacter | piscolens | Named | Oral | | | | 2.56 Mbps |
