| Daphne genkwa Siebold et Zucc. | MAKS1566, MAKS0673 |
| Daphne kiusiana Miq. | MAKS1564, MAKS0674 |
| Daphne odora Thunb. | MAKS1565, MAKS0675, MAKS1561 |
| Daphne pseudo-mezereum A. Gray | MAKS0672 |
| Daphniphyllum teijsmannii Zoll. | MAKS0487, MAKS0488 |
| Daucus carota L. | MAKS2059 |
| Debregeasia edulis (Siebold et Zucc.) Weddell | MAKS1668, MAKS0714 |
| Dendranthema pacificum (Nakai) Kitam. | MAKS1325 |
| Dendranthema zawadskii (Herbich) Tzvelev | MAKS1362 |
| Dendropanax trifidus (Thunb.) Makino | MAKS2034 |
| Deutzia crenata Siebold et Zucc. | MAKS0888, MAKS1955, MAKS0889 |
| Deutzia crenata Siebold et Zucc f. pllena (Maxim.) C. K. Schneider | MAKS1953 |
| Deutzia gracilis Siebold et Zucc. | MAKS0890 |
| Deutzia scabra Thunb. | MAKS1954 |
| Deutzia scabra Thunb.
syn. D. sieboldiana Maxim. | MAKS0432, MAKS0891 |
| Dianthus chinensis L. | MAKS0151, MAKS0152 |
| Dianthus japonicus Thunb. | MAKS0150 |
| Dicentra peregrina (Rudolph) Makino | MAKS0116 |
| Dicentra spectabilis (L.) Lemaire | MAKS0113 |
| Digitaria ciliaris (Retz.) Koel. | MAKS2483, MAKS2484, MAKS2486 |
| Dioscorea bulbifera L. | MAKS2188 |
| Dioscorea japonica Thunb. | MAKS0774, MAKS2183 |
| Dioscorea nipponica Makino | MAKS0775 |
| Dioscorea quinqueloba Thunb. | MAKS0773 |
| Dioscorea sp. | MAKS2186, MAKS2187, MAKS2189 |
| Dioscorea tenuipes Franch. et Savat. | MAKS2184, MAKS0332 |
| Dioscorea tokoro Makino | MAKS2185, MAKS0329 |
| Diospyros kaki Thunb. | MAKS1128 |
| Diospyros kaki Thunb. var. sylvestris Makino | MAKS1129 |
| Diphylleia grayi Fr. Schm. | MAKS0114, MAKS0115 |
| Diplomorpha ganpi (Siebold et Zucc.) Nakai | MAKS1588, MAKS1589, MAKS0679 |
| Diplomorpha trichotoma (Thunb.) Nakai | MAKS1590, MAKS1591, MAKS0678 |
| Disanthus cercidifolius Maxim. | MAKS2090 |
| Disporum pullum Salisb. | MAKS0785 |
| Disporum sessile Don | MAKS0784, MAKS2146, MAKS2148, MAKS2147 |
| Disporum smilacinum A. Gray | MAKS2150, MAKS0782, MAKS0783 |
| Disporum sp. | MAKS2145, MAKS2149 |
| Distylium racemosum Siebold et Zucc. | MAKS2094 |
| Dodonaea viscosa L | MAKS1183 |
| Dracocephalum argunense Fisch. | MAKS2227, MAKS2228, MAKS2229 |
| Drosera peltata Smith var. nipponica (Masam.) Ohwi | MAKS0421 |
| Drosera peltata Smith var. nipponica (Masam.) Ohwi
| MAKS2096 |
| Drosera rotundifolia L. | MAKS2095 |
| Duchesnea chrysantha (Zoll. et Mor.) Miq. | MAKS1912 |
