Hypoxylon acaciae- Hypoxylon aeruginosum
- Hypoxylon albidum
- Hypoxylon albolanatum
- Hypoxylon allantosporum
- Hypoxylon amorphum
- Hypoxylon anomalum
- Hypoxylon anthochroum
- Hypoxylon apoense
- Hypoxylon arnoldiae
- Hypoxylon asperatum
- Hypoxylon atroviride
- Hypoxylon begae
- Hypoxylon bermudense
- Hypoxylon bomba
- Hypoxylon botrytis
- Hypoxylon bresadolae
- Hypoxylon brevirimum
- Hypoxylon brevisporum
- Hypoxylon californicum
- Hypoxylon carneum
- Hypoxylon cercidicola
- Hypoxylon chionostomum
- Hypoxylon chusquae
- Hypoxylon cinnabarinum
- Hypoxylon citrinum
- Hypoxylon commutatum
- Hypoxylon coprophilum
- Hypoxylon cornutum
- Hypoxylon croceum
- Hypoxylon crocopeplum
- Hypoxylon cyclopicum
- Hypoxylon cylindrophorum
- Hypoxylon dearnessii
- Hypoxylon diatrypeoides
- Hypoxylon dickermanii
- Hypoxylon dieckmannii
- Hypoxylon disjunctum
- Hypoxylon duranii
- Hypoxylon dussianum
- Hypoxylon ellipticum
- Hypoxylon erinaceum
- Hypoxylon erythrostroma
- Hypoxylon fendleri
- Hypoxylon ferrugineum
- Hypoxylon fibuliforme
- Hypoxylon fragiforme
- Hypoxylon fragile
- Hypoxylon fragillimum
- Hypoxylon fraxinophilum
- Hypoxylon fuscoides
- Hypoxylon fuscopurpureum
- Hypoxylon fuscum
- Hypoxylon fusoideosporum
- Hypoxylon geasteroides
- Hypoxylon giganteum
- Hypoxylon gigasporum
- Hypoxylon gilbertsonii
- Hypoxylon glandiforme
- Hypoxylon glycyrrhiza
- Hypoxylon griseocinctum
- Hypoxylon haematostroma
- Hypoxylon howeanum
- Hypoxylon hypomiltum
- Hypoxylon investiens
- Hypoxylon jecorinum
- Hypoxylon julianii
- Hypoxylon julii
- Hypoxylon kretzschmarioides
- Hypoxylon langloisii
- Hypoxylon laschii
- Hypoxylon laurus
- Hypoxylon lenormandii
- Hypoxylon leucodermium
- Hypoxylon liviae
- Hypoxylon loculiferum
- Hypoxylon macrocarpum
- Hypoxylon macrosporum
- Hypoxylon magnum
- Hypoxylon megalospermum
- Hypoxylon megalosporum
- Hypoxylon melanaspis
- Hypoxylon moellerianum
- Hypoxylon monticulosum
- Hypoxylon morganii
- Hypoxylon munkii
- Hypoxylon musceum
- Hypoxylon nicaraguense
- Hypoxylon notatum
- Hypoxylon novemexicanum
- Hypoxylon nucitena
- Hypoxylon nudicolle
- Hypoxylon obtusissimum
- Hypoxylon ochraceum
- Hypoxylon papillatum
- Hypoxylon parksianum
- Hypoxylon perforatum
- Hypoxylon perusense
- Hypoxylon petriniae
- Hypoxylon pilgerianum
- Hypoxylon placentiforme
- Hypoxylon poliosum
- Hypoxylon polyporus
- Hypoxylon porphyreum
- Hypoxylon protuberans
- Hypoxylon pynaerthi
- Hypoxylon ravidoroseum
- Hypoxylon rectangulosporum
- Hypoxylon retpela
- Hypoxylon rickii
- Hypoxylon rostrisporum
- Hypoxylon rubellum
- Hypoxylon rubigineoareolatum
- Hypoxylon rubiginosum
- Hypoxylon rutilum
- Hypoxylon salicicola
- Hypoxylon samuelsii
- Hypoxylon sclerophaeum
- Hypoxylon seperans
- Hypoxylon shearii
- Hypoxylon smilacicola
- Hypoxylon subalbum
- Hypoxylon subdisciforme
- Hypoxylon subgilvum
- Hypoxylon sublimbatum
- Hypoxylon submonticulosum
- Hypoxylon subrutilum
- Hypoxylon subticinense
- Hypoxylon sulcatum
- Hypoxylon symphyon
- Hypoxylon ticinense
- Hypoxylon torrendii
- Hypoxylon tortisporum
- Hypoxylon trugodes
- Hypoxylon umbrinellum
- Hypoxylon undulatum
- Hypoxylon verrucosum
- Hypoxylon vinosopurpureum
- Hypoxylon vogesiacum