| alpaca adenovirus ca/2007 | Yes | no rank | viruses and viroids | viruses | species | 674930 | click here |
| alpaca adenovirus gbr/3387_02 | Yes | no rank | viruses and viroids | viruses | species | 679173 | click here |
| alpaca coronavirus | Yes | species | | | species | 1770168 | click here |
| alpaca coronavirus ca08-1/2008 | Yes | no rank | viruses and viroids | viruses | species | 669204 | click here |
| alpaca polyomavirus | Yes | species | | | species | 1970065 | click here |
| alpaca respiratory coronavirus | Yes | no rank | | | no rank | 1176035 | click here |
| amblyomma parvitarsum | Yes | species | eukaryota | invertebrates | species | 260089 | click here |
| anaeromyces mucronatus | No | species | eukaryota | plants | species | 994854 | click here |
| arthroderma benhamiae | Yes | species | eukaryota | plants | species | 63400 | click here |
| babesia bigemina | Yes | species | eukaryota | invertebrates | species | 5866 | click here |
| betacoronavirus 1 | Yes | species | viruses and viroids | viruses | species | 694003 | click here |
| bifidobacterium pseudolongum subsp. globosum | Yes | subspecies | bacteria | bacteria | subspecies | 1690 | click here |
| blastocystis hominis | Yes | species | eukaryota | plants | species | 12968 | click here |
| blastocystis sp. | No | species | eukaryota | plants | species | 46767 | click here |
| blastocystis sp. | Yes | species | eukaryota | plants | species | 46767 | click here |
| blastocystis sp. subtype 10 | Yes | no rank | eukaryota | plants | species | 944207 | click here |
| blastocystis sp. subtype 14 | Yes | no rank | | | species | 1202666 | click here |
| blastocystis sp. subtype 18 | Yes | no rank | | | species | 1544337 | click here |
| blastocystis sp. subtype 22 | Yes | no rank | | | species | 1544341 | click here |
| blastomyces dermatitidis | Yes | species | eukaryota | plants | species | 5039 | click here |
| bluetongue virus | Yes | species | viruses and viroids | viruses | species | 40051 | click here |
| bluetongue virus 11 | Yes | no rank | viruses and viroids | viruses | no rank | 35329 | click here |
| border disease virus | Yes | species | viruses and viroids | viruses | species | 358764 | click here |
| borna disease virus | Yes | species | viruses and viroids | viruses | species | 12455 | click here |
| borna disease virus 1 | Yes | no rank | | | no rank | 1714621 | click here |
| bovine adenovirus 3 | Yes | no rank | viruses and viroids | viruses | no rank | 10510 | click here |
| bovine coronavirus | Yes | no rank | viruses and viroids | viruses | no rank | 11128 | click here |
| bovine coronavirus isolate alpaca | Yes | no rank | viruses and viroids | viruses | no rank | 404135 | click here |
| bovine herpesvirus 1 | Yes | species | viruses and viroids | viruses | species | 10320 | click here |
| bovine leukemia virus | Yes | species | viruses and viroids | viruses | species | 11901 | click here |
| bovine parainfluenza virus 3 | Yes | species | viruses and viroids | viruses | species | 11215 | click here |
| bovine viral diarrhea virus 1 | Yes | species | viruses and viroids | viruses | species | 11099 | click here |
| bovine viral diarrhea virus type 1b | Yes | no rank | viruses and viroids | viruses | no rank | 981676 | click here |
| brucella abortus | Yes | species | bacteria | bacteria | species | 235 | click here |
| brucella abortus 94-1313 | Yes | no rank | | | no rank | 1328354 | click here |
| calicophoron daubneyi | Yes | species | eukaryota | invertebrates | species | 300641 | click here |
| camelostrongylus mentulatus | Yes | species | eukaryota | invertebrates | species | 53334 | click here |
| campylobacter iguaniorum | Yes | species | | | species | 1244531 | click here |
| campylobacter sp. rm8835 | Yes | no rank | | | species | 1895633 | click here |
| campylobacter sp. rm9261 | Yes | no rank | | | species | 1895637 | click here |
| campylobacter sp. rm9262 | Yes | no rank | | | species | 1895638 | click here |
| campylobacter sp. rm9263 | Yes | no rank | | | species | 1895639 | click here |
| candidatus mycoplasma haemolamae | Yes | species | bacteria | bacteria | species | 141391 | click here |
| canine respiratory coronavirus | Yes | no rank | viruses and viroids | viruses | no rank | 215681 | click here |
| chorioptes bovis | Yes | species | eukaryota | invertebrates | species | 420257 | click here |
| clostridium perfringens | Yes | species | bacteria | bacteria | species | 1502 | click here |
| coccidioides posadasii | Yes | species | eukaryota | plants | species | 199306 | click here |
| cooperia oncophora | Yes | species | eukaryota | invertebrates | species | 27828 | click here |
| corynebacterium pseudotuberculosis | Yes | species | bacteria | bacteria | species | 1719 | click here |
| corynebacterium pseudotuberculosis 267 | Yes | | | | no rank | 1089446 | click here |
| cowpox virus | Yes | species | viruses and viroids | viruses | species | 10243 | click here |
| cryptosporidium parvum | Yes | species | eukaryota | invertebrates | species | 5807 | click here |
| cryptosporidium sp. | Yes | species | eukaryota | invertebrates | species | 90962 | click here |
| cryptosporidium ubiquitum | Yes | species | eukaryota | invertebrates | species | 857276 | click here |
| deinococcus proteolyticus | Yes | species | bacteria | bacteria | species | 55148 | click here |
| deinococcus proteolyticus mrp | Yes | no rank | bacteria | bacteria | no rank | 693977 | click here |
| dicrocoelium dendriticum | Yes | species | eukaryota | invertebrates | species | 57078 | click here |
| dictyocaulus filaria | Yes | species | eukaryota | invertebrates | species | 44603 | click here |
| dromedary camel coronavirus | Yes | species | | | species | 1962851 | click here |
| eastern equine encephalitis virus | Yes | species | viruses and viroids | viruses | species | 11021 | click here |
| ebola virus | Yes | subspecies | viruses and viroids | viruses | no rank | 1570291 | click here |
| echinococcus canadensis | Yes | species | eukaryota | invertebrates | species | 519352 | click here |
| echinococcus granulosus | Yes | species | eukaryota | invertebrates | species | 6210 | click here |
| ehrlichia sp. 'lge agent' | Yes | no rank | bacteria | bacteria | species | 129190 | click here |
| eimeria alpacae | Yes | species | | | species | | click here |
| eimeria lamae | Yes | species | eukaryota | invertebrates | species | 703585 | click here |
| eimeria macusaniensis | Yes | species | eukaryota | invertebrates | species | 745318 | click here |
| eimeria peruviana | Yes | species | | | species | | click here |
| eimeria punoensis | Yes | species | | | species | | click here |
| eimeria sp. | Yes | species | | | species | 1729940 | click here |
| encephalomyocarditis virus | Yes | no rank | viruses and viroids | viruses | no rank | 12104 | click here |
| entamoeba sp. | Yes | species | | | species | 2006496 | click here |
| enteractinococcus sp. yim 101617 | Yes | no rank | | | species | 1521434 | click here |
| enteric coronavirus | Yes | species | | | species | 28293 | click here |
| enterocytozoon bieneusi | Yes | species | eukaryota | plants | species | 31281 | click here |
| enterovirus e | Yes | species | viruses and viroids | viruses | species | 12064 | click here |
| enterovirus f | Yes | species | | | species | 1330520 | click here |
| environmental samples | Yes | | | environmental samples | no rank | 333811 | click here |
| environmental samples | Yes | | | environmental samples | no rank | 359183 | click here |
| environmental samples | Yes | | | | no rank | 1629145 | click here |
| equid herpesvirus 1 | Yes | species | viruses and viroids | viruses | species | 10326 | click here |
| equine arteritis virus | Yes | species | viruses and viroids | viruses | species | 11047 | click here |
| equine coronavirus | Yes | no rank | viruses and viroids | viruses | no rank | 136187 | click here |
| escherichia coli | No | species | bacteria | bacteria | species | 562 | click here |
| escherichia coli | Yes | species | bacteria | bacteria | species | 562 | click here |
| faeces associated gemycircularvirus 20 | Yes | no rank | | | no rank | 1843740 | click here |
| faeces associated gemycircularvirus 21 | Yes | no rank | | | no rank | 1843741 | click here |
| fasciola hepatica | Yes | species | eukaryota | invertebrates | species | 6192 | click here |
| fascioloides magna | Yes | species | eukaryota | invertebrates | species | 394415 | click here |
| feline infectious peritonitis virus | Yes | no rank | viruses and viroids | viruses | no rank | 11135 | click here |
| ferret enteric coronavirus | Yes | species | viruses and viroids | viruses | species | 741336 | click here |
| ferret systemic coronavirus | Yes | species | viruses and viroids | viruses | species | 742314 | click here |
| foot-and-mouth disease virus | Yes | species | viruses and viroids | viruses | species | 12110 | click here |
| giardia intestinalis | Yes | species | eukaryota | invertebrates | species | 5741 | click here |
| h1n1 subtype | Yes | no rank | viruses and viroids | viruses | no rank | 114727 | click here |
| haemonchus contortus | Yes | species | eukaryota | invertebrates | species | 6289 | click here |
| heterobilharzia americana | Yes | species | eukaryota | invertebrates | species | 39320 | click here |
| human coronavirus 229e | Yes | species | viruses and viroids | viruses | species | 11137 | click here |
| infectious bronchitis virus | Yes | no rank | viruses and viroids | viruses | no rank | 11120 | click here |
| influenza a virus | Yes | species | viruses and viroids | viruses | species | 11320 | click here |