| Dacrymyces capitatus | 104531, 104532, 104537, 104541 |
| Dacrymyces chrysospermus | 104533, 104534 |
| Dacrymyces lacrymalis | 104535, 104536 |
| Dacrymyces san-augustinii | 32515, 32516 |
| Dacrymyces stillatus | 104538 |
| Dacrymyces variisporus | 104539, 104540 |
| Dactylaria acerosa | 104481 |
| Dactylaria fusiformis | 105953 |
| Dactylaria purpurella | 9336 |
| Dactylaria sp. | 105261 |
| Dactylella atractoides | 7065 |
| Dactylidispora ellipsospora | 31376T |
| Dactylidispora singaporensis | 30865T |
| Dactylospora haliotrepha | 32479, 32480 |
| Dactylosporangium aurantiacum | 12592T |
| Dactylosporangium darangshiense | 109065T |
| Dactylosporangium fulvum | 14381T |
| Dactylosporangium luridum | 109093T |
| Dactylosporangium luteum | 109092T |
| Dactylosporangium maewongense | 106094T |
| Dactylosporangium matsuzakiense | 14259T |
| Dactylosporangium roseum | 14352T |
| Dactylosporangium salmoneum | 14103T |
| Dactylosporangium siamense | 106093T |
| Dactylosporangium sp. | 101297, 101672, 101673, 101674, 101730, 105341, 107861, 110003 |
| Dactylosporangium thailandense | 12593T |
| Dactylosporangium tropicum | 109071T |
| Dactylosporangium vinaceum | 14181T |
| Daedalea albida | 6434, 6510 |
| Daedalea dickinsii | 4979, 6487, 6488, 30766, 31163 |
| Daedalea malicola | 4978 |
| Daedalea serialis | 9286 |
| Daedaleopsis confragosa | 106854 |
| Daedaleopsis tricolor | 6269, 106855 |
| Daldinia concentrica | 7770, 32339, 32340 |
| Daldinia eschscholzii | 104666, 104670, 107024, 107025 |
| Danielia oregonensis | 1980T |
| Dasyscyphella longistipitata | 101335, 101336, 101351 |
| Dasyscyphella montana | 101338, 102336 |
| Dasyscyphella sp. | 104367 |
| Dasyscyphus ciliaris | 8993 |
| Dasyscyphus corticalis | 9518 |
| Debaryomyces carsonii | 0795, 0946T, 1989, 10572 |
| Debaryomyces castellii | 1359T |
| Debaryomyces coudertii | 1817T |
| Debaryomyces etchellsii | 1987T |
| Debaryomyces hansenii | 0026, 0093, 0855, 10142, 10939 |
| Debaryomyces hansenii var. fabryi | 0015T, 0037, 0058, 0059, 0082, 1752, 10571 |
| Debaryomyces hansenii var. hansenii | 0017, 0018, 0019, 0032, 0033, 0034, 0042, 0045, 0047, 0048, 0055, 0057, 0060, 0063, 0066, 0080, 0083T, 0094, 0097, 0564, 0582, 0623, 0644, 0728, 1751 |
| Debaryomyces maramus | 0668T, 1878, 1879, 10686, 10687, 10688 |
| Debaryomyces melissophilus | 1900T, 1901 |
| Debaryomyces nepalensis | 0039, 0085, 1428T, 1429, 102177 |
| Debaryomyces occidentalis var. occidentalis | 0371, 1839, 1840, 1841T, 10212 |
| Debaryomyces occidentalis var. persoonii | 1842T |
| Debaryomyces polymorphus | 111256 |
| Debaryomyces polymorphus var. polymorphus | 1166T, 1189, 1357, 1362, 1363, 1716, 1717 |
| Debaryomyces pseudopolymorphus | 1026T |
| Debaryomyces robertsiae | 1277T |
| Debaryomyces subglobosus | 0794T |
| Debaryomyces udenii | 10689T, 10690 |
| Debaryomyces vanrijiae var. vanrijiae | 0934T, 10028, 111332 |
| Debaryomyces vanrijiae var. yarrowii | 1818T |
| Debaryomyces vietnamensis | 115878 |
| Debaryomyces yamadae | 10691T, 10692 |
| Dechloromonas sp. | 113780 |
| Deferribacter desulfuricans | 101012T |
| Deferribacter sp. | 102158 |
| Deightoniella torulosa | 7658, 9333 |
| Deinococcus aluminii | 112889T |
| Deinococcus aquaticus | 101311T |
| Deinococcus aquiradiocola | 102118T |
| Deinococcus caeni | 101312T |
| Deinococcus carri | 110142T |
| Deinococcus cellulosilyticus | 106333T |
| Deinococcus depolymerans | 102115T |
| Deinococcus grandis | 101905T |
| Deinococcus irradiatisoli | 113037T |
| Deinococcus koreensis | 112908T |
| Deinococcus lacus | 112440T |
| Deinococcus metallilatus | 110141T |
| Deinococcus misasensis | 102116T |
| Deinococcus multiflagellatus | 112888T |
| Deinococcus proteolyticus | 101906T |
| Deinococcus radiodurans | 15346T |
| Deinococcus radiophilus | 15347T |
| Deinococcus radiopugnans | 15348T |
| Deinococcus reticulitermitis | 106334T |
| Deinococcus roseus | 102117T |
| Deinococcus sp. | 113556, 114782, 114783 |
| Deinococcus wulumuqiensis | 105665T, 105666T |
| Deinococcus xinjiangensis | 107630T |
| Dekkera bruxellensis | 1590T |
| Delftia acidovorans | 13582, 14950T |
| Delftia tsuruhatensis | 16741T |
| Delitschia gigaspora | 9506, 30092 |
| Delitschia marchalii | 8602 |
| Dematioscypha dematiicola | 108583 |
| Dematium nigrum | 6131 |
| Demequina activiva | 110675T |
| Demequina aestuarii | 106260T |
| Demequina aurantiaca | 106265T |
| Demequina flava | 105854T |
| Demequina gelatinilytica | 109390T |
| Demequina globuliformis | 106266T |
| Demequina iriomotensis | 109399T |
| Demequina litorisediminis | 112299T |
| Demequina lutea | 106155T |
| Demequina mangrovi | 105856T |
| Demequina maris | 109392T, 109398, 110048 |
| Demequina oxidasica | 106264T |
| Demequina pelophila | 109393T |
| Demequina phytophila | 109391T |
| Demequina rhizosphaerae | 109397T, 110049, 110050 |
| Demequina salsinemoris | 105323T |
| Demequina sediminicola | 105855T |
| Demequina silvatica | 109395T |
| Demequina soli | 109394T |
| Demequina sp. | 104921, 104922, 107104, 110982, 110985, 110987, 110989, 110995, 110996, 110998 |
| Demequina subtropica | 109396T |
| Demetria terragena | 16164T |
| Dendrosporium lobatum | 108070 |
| Dendryphiella sp. | 100152, 100153, 100154 |
| Dendryphiella vinosa | 32669 |
| Dendryphion nanum | 8946 |
| Dendryphion papaveris | 9282, 9801 |
| Dendryphiopsis atra | 8839, 32634 |
| Denitrovibrio acetiphilus | 114555T |
| Dermabacter hominis | 106157T |
| Dermacoccus nishinomiyaensis | 15356T |
| Dermatophilus congolensis | 13913, 105199T, 112768 |
| Dermocarpa sp. (class: Cyanophyceae) | 102690, 102715, 102906, 102907 |
| Derxia gummosa | 102506T |
| Derxomyces boninensis | 100922T, 100923 |
| Derxomyces schimicola | 100924T |
| Derxomyces waltii | 100925T, 100926, 100927 |
| Desarmillaria tabescens | 9616, 31620 |
| Desertibaculum subflavum | 112952T |
| Desertimonas flava | 112924T |
| Desmazierella acicola | 9095 |
| Desmospora profundinema | 109626T |
| Desulfallas sapomandens | 112755T |
| Desulfallas thermosapovorans | 112758T |
| Desulfatitalea tepidiphila | 107166T |
| Desulfitobacterium hafniense | 109954 |
| Desulfobulbus rhabdoformis | 105811, 105812 |
| Desulfocucumis palustris | 112242T |
| Desulfofundulus thermoacetoxidans | 112756T |
| Desulfofundulus thermocisternus | 112757T |
| Desulfolucanica intricata | 109411T |
| Desulfolutivibrio sulfoxidireducens | 113989, 113990T |
| Desulfopila inferna | 103921T |
| Desulfoplanes formicivorans | 110391T |
| Desulfoprunum benzoelyticum | 110690T |
| Desulforamulus aeronauticus | 112752T |
| Desulfoscipio geothermicus | 112753T |
| Desulfoscipio gibsoniae | 112754T |
| Desulfotomaculum nigrificans | 13698T |
| Desulfovibrio brasiliensis | 105818 |
| Desulfovibrio capillatus | 105813, 105814 |
| Desulfovibrio dechloracetivorans | 105815, 105816, 105817 |
| Desulfovibrio indonesiensis | 105819 |
| Desulfovibrio sp. | 101757 |
| Desulfovibrio subterraneus | 112213T |
| Desulfovibrio vulgaris | 13699 |
| Desulfovibrio vulgaris subsp. vulgaris | 104121T |
| Dethiosulfatibacter aminovorans | 101112T |
| Devosia nitrariae | 112416T |
| Devosia oryziradicis | 114842T |
| Devosia rhizoryzae | 114485T |
| Devosia riboflavina | 13584T |
| Devosia soli | 106426T |
| Devosia yakushimensis | 103855T |
| Diaminobutyricibacter tongyongensis | 108724T |
| Diaminobutyricimonas aerilata | 108726T |
| Diaphorobacter aerolatus | 108926T |
| Diaphorobacter sp. | 105669 |
| Diaporthe citri | 6443, 8416, 8977, 9170, 30132, 30133, 30134, 30135 |
| Diaporthe eucalyptorum | 112129 |
| Diaporthe medusaea | 30895 |
| Diaporthe nomurai | 7661, 30961, 30962 |
| Diaporthe phaseolorum var. sojae | 6707, 6708, 6709, 6710 |
| Diaporthe sp. | 105283 |
| Diaporthe vaccinii | 32646T |
| Diatrype stigma | 32341, 32342 |
| Dicephalospora rufocornea | 103600, 103647, 103661, 103668, 103669, 109859 |
| Dicranidion fissile | 31823T |
| Dicranidion fragile | 6886, 6990 |
| Dicranidion inaequale | 9366T |
| Dicrateria rotunda (Class: Haptophyceae) | 102790, 102791 |
| Dictyobacter alpinus | 113154T |
| Dictyobacter arantiisoli | 113155T |
| Dictyobacter aurantiacus | 109595T |
| Dictyobacter kobayashii | 113153T |
| Dictyobacter vulcani | 113551T |
| Dictyochaeta gyrosetula | 104947 |
| Dictyochaeta simplex | 30665, 32659, 100560 |
| Dictyosporium digitatum | 104949 |
| Dictyosporium elegans | 8932, 32501, 32502, 101419 |
| Dictyuchus sterilis | 102548, 104178 |
| Dicyma olivacea | 9178T, 9841, 31999, 32298T, 33232 |
| Diddensiella caesifluorescens | 112342T, 112343 |
| Didymella bryoniae | 109318 |
| Didymella glomerata | 114570 |
| Didymella lycopersici | 6301 |
| Didymobotryum rigidum | 100408, 100409 |
| Didymostilbe matsushimae | 32328 |
| Diehliomyces microsporus | 30003 |
| Dietzia alimentaria | 109780T |
| Dietzia cinnamea | 102147T |
| Dietzia kunjamensis | 105042T |
| Dietzia maris | 13162, 15801T, 15802 |
| Dietzia natronolimnaea | 13170, 13173, 105040T |
| Dietzia papillomatosis | 105045T |
| Dietzia psychralcaliphila | 103065T |
| Dietzia sp. | 15324, 15325, 15349, 15350, 15351, 15352, 113575, 113576 |
| Dietzia timorensis | 104184T |
| Diffractella curvata | 9820 |
| Digitodochium rhodoleucum | 32296T |
| Diheterospora catenulata | 9373 |
| Dimargaris xerosporica | 105798 |
| Dimorphospora foliicola | 7529 |
| Dinemasporium ambiguum | 110114T |
| Dinemasporium bambusicola | 110115T |
| Dinemasporium iriomotense | 110116T |
| Dinemasporium japonicum | 110117T |
| Dinemasporium parastrigosum | 110118T |
| Dinemasporium pseudodecipiens | 110119T |
| Dinemasporium rishiriense | 110120T |
| Dinemasporium sasae | 110121T |
| Dioszegia crocea | 10113T |
| Dioszegia hungarica | 1052T, 10112 |
| Dioszegia zsoltii var. zsoltii | 114167, 114836 |
| Diplocarpon mali | 30405 |
| Diplocarpon rosae | 9908, 30158 |
| Diploceras hypericinum | 32647 |
| Diplocladiella scalaroides | 30074, 108210 |
| Diplocladiella taurina | 32864 |
| Diplococcium strictum | 6468 |
| Diplodia maydis | 6115 |
| Diplodia pinea | 6472 |
| Diplogelasinospora grovesii | 9549, 31886 |
| Diplogelasinospora inaequalis | 9824, 30580 |
| Diplogelasinospora princeps | 9550 |
| Diplosphaera chodatii (class: Trebouxiophyceae) | 113317 |
| Diplosphaera sp. (class: Trebouxiophyceae) | 113288, 113289, 113318 |
| Diplosporium flavum | 6788 |
| Dipodascopsis anomala | 10400T |
| Dipodascopsis tothii | 10813T |
| Dipodascopsis uninucleata var. uninucleata | 10814T |
| Dipodascopsis uninucleata var. wickerhamii | 10815T |
| Dipodascus aggregatus | 10816T |
| Dipodascus albidus | 1984 |
| Dipodascus ambrosiae | 10801T |
| Dipodascus armillariae | 10802T, 10803, 10804, 10817, 10818 |
| Dipodascus australiensis | 10805T |
| Dipodascus capitatus | 0743, 1197, 10819T, 10820 |
| Dipodascus geniculatus | 10806T |
| Dipodascus ingens | 10057, 10060 |
| Dipodascus macrosporus | 10807T |
| Dipodascus magnusii | 0110, 4600, 10808 |
| Dipodascus ovetensis | 1201, 10827 |
| Dipodascus spicifer | 10809T |
| Dipodascus tetrasperma | 10810T |
| Dipodascus tetrasporus | 103136T |
| Discosia aquatica | 32624 |
| Discosia artocreas | 8975, 31640, 31883 |
| Discosia brasiliensis | 104198, 104199 |
| Discosia eucalypti | 104195, 104196, 104197 |
| Discosia pini | 32623 |
| Discosia yakushimensis | 104194T |
| Discostroma corticola | 32625 |
| Discostroma tostum | 32626 |
| Discostroma tricellulare | 32705T, 32706, 32707, 100406, 100407 |
| Discostromopsis stoneae | 32690 |
| Disporotrichum dimorphosporum | 9363 |
| Dissulfurispira thermophila | 114245T |
| Diutina rugosa | 0750T |
| Diutina siamensis | 109695T |
| Dixoniella grisea (class: Rhodellophyceae) | 102778 |
| Doassansia horiana | 9629, 9630 |
| Dolosigranulum pigrum | 15550T |
| Doratomyces microsporus | 8107, 9188, 9383, 31956, 32251 |
| Doratomyces purpureofuscus | 7677, 31240, 33045 |
| Doratomyces putredinis | 8987, 9384, 33046 |
| Doratomyces stemonitis | 5878, 6789, 7857, 8314, 32040 |
| Dothideomycetes sp. | 112134 |
| Dothiorella ribis | 6461 |
| Drechmeria balanoides | 102297 |
| Drechmeria cf. zeospora | 109422 |
| Drechslera avenae | 6636, 7254, 7358, 100219 |
| Drechslera biseptata | 30131 |
| Drechslera buchloes | 9794 |
| Drechslera catenaria | 100218 |
| Drechslera dematioidea | 7364 |
| Drechslera erythrospila | 7260, 7378 |
| Drechslera monoceras | 9619, 9800 |
| Drechslera papendorfii | 100211, 100212 |
| Drechslera phlei | 7359 |
| Drechslera poae | 9796, 9798 |
| Drechslera siccans | 6688, 7363, 7372, 7373, 7374 |
| Drechslera tritici-vulgaris | 6640, 7506 |
| Drechslera zizaniae | 6632, 9799 |
| Drepanospora pannosa | 32661 |
| Duganella aceris | 113903T |
| Duganella dendranthematis | 114510T |
| Duganella zoogloeoides | 102465T |
| Dumontinia tuberosa | 30254 |
| Duosporium yamadanum | 32568, 32569 |
| Durella macrospora | 114593 |
| Dyadobacter alkalitolerans | 107668T |
| Dyadobacter flavalbus | 113854T |
| Dyadobacter frigoris | 113791T, 113792 |
| Dyadobacter koreensis | 101116T |
| Dyadobacter psychrotolerans | 113790T |
| Dyadobacter sp. | 114372 |
| Dyella acidisoli | 111980T |
| Dyella dinghuensis | 111978T |
| Dyella flagellata | 111981T |
| Dyella flava | 111979T |
| Dyella halodurans | 111474T |
| Dyella humi | 114105T |
| Dyella japonica | 102414T, 104185, 104186 |
| Dyella koreensis | 100831T |
| Dyella lipolytica | 111473T |
| Dyella mobilis | 111475T |
| Dyella nitratireducens | 111472T |
| Dyella sp. | 101872 |