| faecalitalea cylindroides | 4 | species | bacteria | bacteria | 39483 |
| clostridium moniliforme | 1 | species | bacteria | bacteria | 39489 |
| [eubacterium] rectale | 27 | species | bacteria | bacteria | 39491 |
| mycobacterium porcinum | 7 | species | bacteria | bacteria | 39693 |
| circovirus | 68 | genus | viruses | | 39725 |
| asfivirus | 1 | genus | viruses | | 39743 |
| rubulavirus | 23 | genus | viruses | | 39744 |
| aquabirnavirus | 12 | genus | viruses | | 39750 |
| avibirnavirus | 6 | genus | viruses | | 39751 |
| deltavirus | 3 | genus | viruses | | 39759 |
| veillonella atypica | 12 | species | bacteria | bacteria | 39777 |
| veillonella dispar | 17 | species | bacteria | bacteria | 39778 |
| klebsiella granulomatis | 16 | species | bacteria | bacteria | 39824 |
| caprine herpesvirus 1 | 14 | species | viruses | viruses | 39944 |
| dialister | 24 | genus | bacteria | | 39948 |
| tyuleniy virus | 2 | species | viruses | viruses | 40004 |
| saumarez reef virus | 1 | species | viruses | viruses | 40012 |
| streptococcus equi subsp. zooepidemicus | 33 | subspecies | bacteria | bacteria | 40041 |
| african horse sickness virus | 28 | species | viruses | viruses | 40050 |
| bluetongue virus | 64 | species | viruses | viruses | 40051 |
| changuinola virus | -3 | species | | viruses | 40052 |
| epizootic hemorrhagic disease virus | 22 | species | viruses | viruses | 40054 |
| lebombo virus | -3 | species | | viruses | 40057 |
| orungo virus | 4 | species | | viruses | 40058 |
| palyam virus | 4 | species | viruses | viruses | 40059 |
| kemerovo virus | 8 | no rank | viruses | viruses | 40064 |
| wad medani virus | -3 | species | | viruses | 40067 |
| erythroparvovirus | 29 | genus | viruses | | 40121 |
| polyopisthocotylea | 19 | order | invertebrates | | 40163 |
| acinetobacter johnsonii | 26 | species | bacteria | bacteria | 40214 |
| acinetobacter junii | 20 | species | bacteria | bacteria | 40215 |
| acinetobacter radioresistens | 23 | species | bacteria | bacteria | 40216 |
| roseolovirus | 5 | genus | viruses | | 40272 |
| stenotrophomonas | 72 | genus | bacteria | | 40323 |
| stenotrophomonas maltophilia | 80 | species | bacteria | bacteria | 40324 |
| legionella tucsonensis | 2 | species | bacteria | bacteria | 40335 |
| strongylus edentatus | 14 | species | invertebrates | helminths | 40346 |
| strongylus equinus | 7 | species | invertebrates | helminths | 40347 |
| strongylus vulgaris | 26 | species | invertebrates | helminths | 40348 |
| trichostrongylus axei | 22 | species | invertebrates | helminths | 40349 |
| trichostrongylus retortaeformis | 13 | species | invertebrates | helminths | 40350 |
| trichostrongylus tenuis | 27 | species | invertebrates | helminths | 40351 |
| trichostrongylus vitrinus | 19 | species | invertebrates | helminths | 40352 |
| fonsecaea pedrosoi | 28 | species | plants | fungi | 40355 |
| scopulariopsis brumptii | 5 | species | plants | fungi | 40376 |
| mycoplasma capricolum subsp. capricolum | 11 | subspecies | bacteria | bacteria | 40479 |
| ovine papillomavirus | 2 | species | viruses | viruses | 40541 |
| leptotrichia buccalis | 17 | species | bacteria | bacteria | 40542 |
| sutterella | 10 | genus | bacteria | | 40544 |
| sutterella wadsworthensis | 7 | species | bacteria | bacteria | 40545 |
| borrelia duttonii | 13 | species | bacteria | bacteria | 40834 |
| borrelia hispanica | 4 | species | bacteria | bacteria | 40835 |
| aspergillus candidus | 20 | species | plants | fungi | 41067 |
| ewingella | 11 | genus | bacteria | | 41201 |
| ewingella americana | 10 | species | bacteria | bacteria | 41202 |
| tissierella | 6 | genus | bacteria | | 41273 |
| brevundimonas | 23 | genus | bacteria | | 41275 |
| brevundimonas vesicularis | 15 | species | bacteria | bacteria | 41276 |
| greek goat encephalitis virus | 2 | species | viruses | viruses | 41406 |
| spanish sheep encephalitis virus | -3 | species | viruses | viruses | 41408 |
| lomentospora prolificans | 44 | species | plants | fungi | 41688 |
| lawsonia | 30 | genus | bacteria | | 41707 |
| opisthorchis sinensis | 1 | species | invertebrates | helminths | 41765 |
| aspergillus flavipes | 13 | species | plants | fungi | 41900 |
| porphyromonas catoniae | 6 | species | bacteria | bacteria | 41976 |
| pleurostoma richardsiae | 9 | species | plants | fungi | 41990 |
| ureaplasma diversum | 12 | species | bacteria | bacteria | 42094 |
| brugia timori | 10 | species | invertebrates | helminths | 42155 |
| onchocerca ochengi | 13 | species | invertebrates | helminths | 42157 |
| mansonella perstans | 18 | species | invertebrates | helminths | 42231 |
| fusarium ventricosum | 3 | species | plants | fungi | 42327 |
| vittaforma corneae | 18 | species | plants | fungi | 42399 |
| lichtheimia corymbifera | 24 | species | plants | fungi | 42458 |
| fusarium napiforme | 5 | species | plants | fungi | 42672 |
| fusarium sacchari | 7 | species | plants | fungi | 42676 |
| fusarium subglutinans | 30 | species | plants | fungi | 42677 |
| fusarium lichenicola | 12 | species | plants | fungi | 42744 |
| tsukamurella inchonensis | 6 | species | bacteria | bacteria | 42777 |
| coxsackievirus a1 | 2 | no rank | viruses | viruses | 42779 |
| enterovirus d68 | 8 | no rank | viruses | viruses | 42789 |
| corynebacterium argentoratense | 3 | species | bacteria | bacteria | 42817 |
| rickettsia felis | 29 | species | bacteria | bacteria | 42862 |
| trichomonas tenax | 11 | species | invertebrates | protozoa | 43075 |
| acanthamoeba culbertsoni | 15 | species | invertebrates | protozoa | 43142 |
| exophiala salmonis | 4 | species | plants | fungi | 43214 |
| pseudomonas alcaligenes | 25 | species | bacteria | bacteria | 43263 |
| isaria javanica | 5 | species | plants | fungi | 43265 |
| mycobacterium peregrinum | 16 | species | bacteria | bacteria | 43304 |
| dientamoeba fragilis | 23 | species | invertebrates | protozoa | 43352 |
| jonesia | 9 | genus | bacteria | | 43673 |
| rhodococcus equi | 50 | species | bacteria | bacteria | 43767 |
| corynebacterium propinquum | 5 | species | bacteria | bacteria | 43769 |
| corynebacterium striatum | 19 | species | bacteria | bacteria | 43770 |
| corynebacterium urealyticum | 15 | species | bacteria | bacteria | 43771 |
| johnsonella | 2 | genus | bacteria | | 43994 |
| catonella | 4 | genus | bacteria | | 43996 |
| mycobacterium conspicuum | 2 | species | bacteria | bacteria | 44010 |
| kokobera virus | 4 | species | viruses | viruses | 44024 |
| koutango virus | 3 | species | viruses | viruses | 44025 |
| sepik virus | 2 | species | viruses | viruses | 44026 |