| maize stripe virus | 18 | species | viruses | viruses | 12330 |
| maize rough dwarf virus | 13 | species | viruses | viruses | 10989 |
| maize dwarf mosaic virus | 24 | species | viruses | viruses | 12203 |
| machupo mammarenavirus | 18 | species | viruses | viruses | 11628 |
| macacine herpesvirus 1 | 25 | species | viruses | viruses | 10325 |
| lymphocytic choriomeningitis mammarenavirus | 148 | species | viruses | viruses | 11623 |
| lumpy skin disease virus | 16 | species | viruses | viruses | 59509 |
| louping ill virus | 14 | species | viruses | viruses | 11086 |
| listeria welshimeri | 21 | species | bacteria | bacteria | 1643 |
| listeria seeligeri | 25 | species | bacteria | bacteria | 1640 |
| listeria monocytogenes | 207 | species | bacteria | bacteria | 1639 |
| listeria ivanovii | 32 | species | bacteria | bacteria | 1638 |
| lichtheimia corymbifera | 24 | species | plants | fungi | 42458 |
| leptospira interrogans | 49 | species | bacteria | bacteria | 173 |
| leishmania tropica | 49 | species | invertebrates | protozoa | 5666 |
| leishmania shawi | 5 | species | invertebrates | protozoa | 5680 |
| leishmania pifanoi | 17 | species | invertebrates | protozoa | 5682 |
| leishmania peruviana | 13 | species | invertebrates | protozoa | 5681 |
| leishmania panamensis | 17 | species | invertebrates | protozoa | 5679 |
| leishmania naiffi | 3 | species | invertebrates | protozoa | 5678 |
| leishmania mexicana venezuelensis | 6 | subspecies | invertebrates | protozoa | 155283 |
| leishmania lainsoni | 8 | species | invertebrates | protozoa | 5677 |
| leishmania guyanensis | 16 | species | invertebrates | protozoa | 5670 |
| leishmania garnhami | 4 | species | invertebrates | protozoa | 214612 |
| leishmania donovani | 98 | species | invertebrates | protozoa | 5661 |
| leishmania colombiensis | 5 | species | invertebrates | protozoa | 93413 |
| leishmania chagasi | 46 | species | invertebrates | protozoa | 44271 |
| leishmania braziliensis | 52 | species | invertebrates | protozoa | 5660 |
| legionella pneumophila | 133 | species | bacteria | bacteria | 446 |
| legionella longbeachae | 16 | species | bacteria | bacteria | 450 |
| lechiguanas virus | 1 | no rank | viruses | viruses | 69245 |
| lassa mammarenavirus | 41 | species | viruses | viruses | 11620 |
| la crosse virus | 40 | no rank | viruses | viruses | 11577 |
| kyasanur forest disease virus | 13 | species | viruses | viruses | 33743 |
| kumlinge virus | 2 | no rank | viruses | viruses | 11092 |
| klebsiella pneumoniae | 146 | species | bacteria | bacteria | 573 |
| klebsiella oxytoca | 66 | species | bacteria | bacteria | 571 |
| junin mammarenavirus | 31 | species | viruses | viruses | 11619 |
| jc polyomavirus | 89 | species | viruses | viruses | 10632 |
| japanese encephalitis virus | 83 | species | viruses | viruses | 11072 |
| influenza c virus | 48 | species | viruses | viruses | 11552 |
| influenza b virus | 57 | species | viruses | viruses | 11520 |
| influenza a virus | 135 | species | viruses | viruses | 11320 |
| human t-lymphotropic virus 2 | 60 | no rank | viruses | viruses | 11909 |
| human t-lymphotropic virus 1 | 137 | no rank | viruses | viruses | 11908 |
| human respiratory syncytial virus | 66 | species | viruses | viruses | 11250 |
| human parvovirus b19 | 81 | species | viruses | viruses | 10798 |
| human parainfluenza virus 3 | 51 | species | viruses | viruses | 11216 |
| human parainfluenza virus 1 | 34 | species | viruses | viruses | 12730 |
| human papillomavirus | 235 | species | viruses | viruses | 10566 |
| human metapneumovirus | 63 | species | viruses | viruses | 162145 |
| human mastadenovirus f | 1 | species | viruses | viruses | 130309 |
| human mastadenovirus e | 2 | species | viruses | viruses | 130308 |
| human mastadenovirus d | 5 | species | viruses | viruses | 130310 |
| human mastadenovirus c | 5 | species | viruses | viruses | 129951 |
| human mastadenovirus b | 3 | species | viruses | viruses | 108098 |
| human mastadenovirus a | 1 | species | viruses | viruses | 129875 |
| human immunodeficiency virus 2 | 399 | species | viruses | viruses | 11709 |
| human immunodeficiency virus 1 | 410 | species | viruses | viruses | 11676 |
| human herpesvirus 7 | 48 | species | viruses | viruses | 10372 |
| human herpesvirus 6 | 94 | species | viruses | viruses | 10368 |
| human herpesvirus 5 | 159 | species | viruses | viruses | 10359 |
| human herpesvirus 4 | 257 | species | viruses | viruses | 10376 |
| human herpesvirus 3 | 113 | species | viruses | viruses | 10335 |
| human herpesvirus 2 | 96 | species | viruses | viruses | 10310 |
| human herpesvirus 1 | 171 | species | viruses | viruses | 10298 |
| human hepatitis a virus | 64 | no rank | viruses | viruses | 208726 |
| human coronavirus oc43 | 29 | no rank | viruses | viruses | 31631 |
| human coronavirus 229e | 39 | species | viruses | viruses | 11137 |
| hu39694 virus | -3 | no rank | viruses | viruses | 69244 |
| histoplasma capsulatum var. duboisii | 13 | varietas | plants | | 149546 |
| histoplasma capsulatum | 72 | species | plants | fungi | 5037 |
| hepatitis c virus | 289 | species | viruses | viruses | 11103 |
| hepatitis b virus | 246 | species | viruses | viruses | 10407 |
| hendra virus | 43 | species | viruses | viruses | 63330 |
| hantaan virus | 61 | species | viruses | viruses | 11599 |
| haemophilus parainfluenzae | 30 | species | bacteria | bacteria | 729 |
| haemophilus parahaemolyticus | 24 | species | bacteria | bacteria | 735 |
| haemophilus influenzae | 148 | species | bacteria | bacteria | 727 |
| haemophilus aegyptius | 17 | species | bacteria | bacteria | 197575 |
| gymnodinium catenatum | 41 | species | plants | protozoa | 39447 |
| guanarito mammarenavirus | 15 | species | viruses | viruses | 45219 |
| goatpox virus | 4 | species | viruses | viruses | 186805 |
| giardia intestinalis | 53 | species | invertebrates | protozoa | 5741 |
| gb virus c | 69 | species | viruses | viruses | 54290 |
| fusobacterium necrophorum | 40 | species | bacteria | bacteria | 859 |
| fusarium solani | 73 | species | plants | fungi | 169388 |
| fusarium oxysporum | 93 | species | plants | fungi | 5507 |
| fusarium graminearum | 56 | species | plants | fungi | 5518 |
| francisella tularensis | 74 | species | bacteria | bacteria | 263 |
| foot-and-mouth disease virus | 89 | species | viruses | viruses | 12110 |
| flexal mammarenavirus | -1 | species | viruses | viruses | 45220 |
| filobasidiella neoformans | 25 | species | | | |
| euphorbia pseudograntii | 6 | species | plants | | 212327 |
| escherichia coli | 524 | species | bacteria | bacteria | 562 |
| erysipelothrix rhusiopathiae | 28 | species | bacteria | bacteria | 1648 |
| epizootic haematopoietic necrosis virus | 19 | species | viruses | viruses | 100217 |
| enterovirus d70 | 24 | no rank | viruses | viruses | 12090 |
| enterovirus d | 5 | species | viruses | viruses | 138951 |
| enterovirus c | 118 | species | viruses | viruses | 138950 |