List of species and infraspecific taxa
- Species: Abrothallus bertianus De Not.
- Remark:
- Fungus type: lichenicolous
- Treatment in Estonia: certain
- Species: Abrothallus caerulescens Kotte
- Remark:
- Fungus type: lichenicolous
- Treatment in Estonia: certain
- Species: Abrothallus parmeliarum (Sommerf.) Arnold
- Remark:
- Fungus type: lichenicolous
- Treatment in Estonia: certain
- Species: Abrothallus peyritschii (Stein) Kotte
- Remark:
- Fungus type: lichenicolous
- Treatment in Estonia: certain
- Species: Abrothallus prodiens (Harm.) Diederich & Hafellner
- Remark:
- Fungus type: lichenicolous
- Treatment in Estonia: certain
- Species: Abrothallus suecicus (Kirscht.) Nordin
- Remark: includes Vouauxiomyces ramalinae (Nordin) D. Hawksw. as anamorph
- Fungus type: lichenicolous
- Treatment in Estonia: certain
- Species: Abrothallus usneae Rabenh.
- Remark:
- Fungus type: lichenicolous
- Treatment in Estonia: certain
- Species: Absconditella celata Döbbeler & Poelt
- Remark:
- Fungus type: lichenized
- Treatment in Estonia: certain
- Species: Absconditella delutula (Nyl.) Coppins & H. Kilias
- Remark:
- Fungus type: lichenized
- Treatment in Estonia: certain
- Species: Absconditella lignicola Vězda & Pišút
- Remark:
- Fungus type: lichenized
- Treatment in Estonia: certain
- Species: Absconditella sphagnorum Vězda & Poelt
- Remark:
- Fungus type: lichenized
- Treatment in Estonia: certain
- Species: Acarospora cervina A. Massal.
- Remark:
- Fungus type: lichenized
- Treatment in Estonia: certain
- Species: Acarospora fuscata (Nyl.) Arnold
- Remark:
- Fungus type: lichenized
- Treatment in Estonia: certain
- Species: Acarospora glaucocarpa (Ach.) Körb.
- Remark:
- Fungus type: lichenized
- Treatment in Estonia: certain
- Species: Acarospora heppii (Nägeli ex Hepp) Nägeli
- Remark: see: Caeruleum heppii (Nägeli ex Körb.) K. Knudsen & Arcadia
- Fungus type: lichenized
- Treatment in Estonia: synonym
- Species: Acarospora insolata H. Magn.
- Remark:
- Fungus type: lichenized
- Treatment in Estonia: doubtful extinct
- Species: Acarospora macrospora (Hepp) A. Massal. ex Bagl.
- Remark:
- Fungus type: lichenized
- Treatment in Estonia: certain
- Species: Acarospora oligospora (Nyl.) Arnold
- Remark:
- Fungus type: lichenized
- Treatment in Estonia: certain
- Species: Acarospora sinopica (Wahlenb.) Körb.
- Remark:
- Fungus type: lichenized
- Treatment in Estonia: certain
- Species: Myriospora smaragdula (Wahlenb. ex Ach.) Nägeli ex Uloth
- Remark: earlier under Acarospora smaragdula
- Fungus type: lichenized
- Treatment in Estonia: certain
- Species: Acarospora veronensis A. Massal.
- Remark:
- Fungus type: lichenized
- Treatment in Estonia: certain
- Species: Acarospora versicolor Bagl. & Carestia
- Remark:
- Fungus type: lichenized
- Treatment in Estonia: certain
- Species: Acremonium antarcticum (Speg.) D. Hawksw.
- Remark:
- Fungus type: lichenicolous
- Treatment in Estonia: certain
- Species: Acrocordia cavata (Ach.) R.C. Harris
- Remark:
- Fungus type: lichenized
- Treatment in Estonia: certain
- väike kühmsamblik
- Species: Acrocordia conoidea (Fr.) Körb.
- Remark:
- Fungus type: lichenized
- Treatment in Estonia: certain