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酵母菌目（學名：Saccharomycetales），或只作酵母目，是真菌界子囊菌門酵母菌綱之下唯一的一個目。
本目現時由13個科組成[3]：
- 漿霉科 Ascoideaceae
- Cephaloascaceae
- 德巴利酵母菌科 Debaryomycetaceae
- 雙足囊菌科 Dipodascaceae
- Endomycetaceae
- Lipomycetaceae
- Metschnikowiaceae T. Kamieński, 1900[2]
- Phaffomycetaceae
- 畢赤酵母科 Pichiaceae Zender, 1925[2]
- 酵母科 Saccharomycetaceae G. Winter, 1880[2]
- Saccharomycopsidaceae[2]
- Trichomonascaceae[2]
在GBIF上，本目包含以下科：
- Alloascoideaceae
- 漿霉科 Ascoideaceae
- Cephaloascaceae
- 德巴利酵母菌科 Debaryomycetaceae
- Dipodascaceae
- Endomycetaceae
- Eremotheciaceae
- Lipomycetaceae
- Metschnikowiaceae
- Phaffomycetaceae
- 畢赤酵母科 Pichiaceae
- 酵母科 Saccharomycetaceae
- Saccharomycodaceae Kudryavtsev 1960
- Hanseniaspora Zikes, 1911
- Kloeckera Janke
- Nadsonia Syd.
- Saccharomycodes E.C.Hansen
- Vanderwaltia
- Wickerhamia Soneda, 1960
- 復膜孢酵母科 Saccharomycopsidaceae Arx & Van der Walt 1987
- 毛紅麴黴科 Trichomonascaceae Kurtzman & Robnett 2007
- Trigonopsidaceae Lachance & Kurtzman 2013
- Botryozyma Shann & M.T.Sm., 1992
- Tortispora M.A.Lachance & C.P.Kurtzman, 2013
- Trigonopsis Schachner, 1929
- 威克漢姆酵母屬 Wickerhamomycetaceae Kurtzman, Robnett & Bas.-Powers 2008
- 科的地位未定的屬：
- Acanthothecium Speg.
- Acarellina Bat. & H.Maia
- Acerbiella Sacc. & D.Sacc.
- Acremoniella Sacc.
- Actiniopsis Starbäck
- Actinopelte Stizenb.
- Actinoteichus Cavalc. & Poroca
- Actinotexis Arx
- Actinothecium Ces.
- Actonia C.W.Dodge, 1935
- Allosoma Syd.
- Allothyrina Bat. & J.L.Bezerra
- Amphoropycnium Bat.
- Ampulliferopsis Bat. & Cavalc.
- Anungitopsis R.F.Castañeda & W.B.Kendr.
- Aphidomyces Brain, 1923
- Ascobotryozyma J.Kerrigan, M.T.Sm. & J.D.Rogers, 2001
- Ascotrichosporon
- Azymocandida
- Bacillopsis Petschenko, 1908
- Berkhoutia
- Blastodendrion
- Cicadomyces K.Sulc, 1911
- Crinitomyces Sakpuntoon, G.Péter, M.Groenew., Dlauchy, Limtong & Srisuk, 2022
- Crinitomyces reliqui Sakpuntoon, G.Péter, M.Groenew., Dlauchy, Limtong & Srisuk, 2022[4]
- Dabaryomyces Klöcker, 1909
- Deakozyma C.P.Kurtzman & C.J.Robnett, 2014
- Diamantinia A.N.Mill., Laessøe & Huhndorf
- Didymobotryum Sacc.
- Diutina Khunnamwong, Lertwattanasakul, Jindam., Limtong & Lachance, 2015
- Dolichoascus Thibaut & Ansel, 1970
- Enantiothamnus Verona, 1933
- Endomycodes Delitsch, 1943
- Entelexis J.P.van der Walt & E.Johannsen, 1973
- Ephebella Itzigsohn, 1857
- Eutorulopsis Cif.
- Fragosia A.Caballero, 1928
- 有孢漢遜酵母屬 Hanseniaspora Zikes ex Klöcker
- Helicodochium J.S.Monteiro et al.
- Helotiella Sacc.
- Hyaloderma Speg.
- Limtongella
- Limtongozyma Boontham, Angchuan, Boonmak & Srisuk, 2021
- Macrorhabdus Tomasz., Logan, Snowden, Kurtzman & Phalen, 2003
- Melioliphila Speg.
- Menezesia Torrend, 1913
- Metahyphopichia
- Middelhovenomyces Kurtzman & Robnett, 2014
- Middelhovenomyces petrohuensis (C. Ramírez & A.E. González) Kurtzman & Robnett 2014
- Middelhovenomyces tepae (Grinb.) Kurtzman & Robnett 2014
- Mycotorula
- Myrmaecium Nitschke ex Fuckel
- Neohelicosporium Y.Z.Lu, J.C.Kang & K.D.Hyde
- Oleina Van Tieghem, 1887
- Ophiochaeta (Sacc.) Sacc.
- Paranthostomella Speg.
- Parendomyces Queyrat & Laroche
- Phaeoacremonium W.Gams, Crous & M.J.Wingf.
- Polyrhizon Theiss. & Syd.
- Pseudomycoderma H.Will, 1916
- Pseudothis Theiss. & Syd.
- Psyllidomyces P.Buchner, 1912
- Puttemansia Henn.
- Pyrenopolyporus Lloyd
- Rizaliopsis Bat., Castr., J.L.Bezerra & Matta
- Roselymyces Fiúza, C.R.Silva, R.F.Castañeda & Gusmão
- Rosenscheldiella Theiss. & Syd.
- Saccardomyces Henn.
- Sachsia Bay, 1894
- Saturnospora Z.W.Liu & C.P.Kurtzman, 1991
- Schizoblastosporon Ciferri, 1930
- Singera Bat. & J.L.Bezerra
- Squamulea Arup, Søchting & Frödén
- Starmerella C.A.Rosa & Lachance
- Suhomyces M.Blackw. & Kurtzman, 2016
- Syntexis Theiss.
- Syringospora Quinq.
- Teunomyces Kurtzman & M.Blackw., 2016
- Thailandia
- Torulopsis Berl., 1894
- Tyridiomyces W.A.Wheeler, 1907
- Xenomeris Syd.
- Xylocrea Möller
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