Between brackets is the number of accepted species
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2 Shows the number of accepted species within the taxon
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- Biota
- Kingdom Animalia
- Kingdom Archaea
- Kingdom Bacteria
- Kingdom Chromista
- Subkingdom Hacrobia
- Subkingdom Harosa
- Infrakingdom Halvaria
- Superphylum Alveolata
- Superphylum Heterokonta
- Phylum Bacillariophyta
- Class Bacillariophyceae
- Order Achnanthales accepted as Mastogloiales
- Order Ardissoneales accepted as Toxariales
- Order Ardissoniales accepted as Toxariales
- Order Bacillariales
- Order Centrales accepted as Coscinodiscophyceae
- Order Climacospheniales accepted as Toxariales
- Order Cocconeidales
- Order Cyclophorales
- Order Cymbellales
- Family Anomoeoneidaceae D.G. Mann, 1990
- Family Cymbellaceae Greville, 1833
- Genus Afrocymbella K. Krammer, 2003
- Genus Brebissonia Grunow, 1860
- Genus Celebesia D.A. Kapustin, M. Kuilkovskiy & J.P. Kociolek, 2017
- Genus Cymbella C.A. Agardh, 1830
- Genus Cymbellafalsa H. Lange-Bertalot & D. Metzeltin in Metzeltin, Lange-Bertalot & Nergui, 2009
- Genus Cymbopleura (K. Krammer) K. Krammer, 1999
- Genus Delicata K. Krammer, 2003 accepted as Delicatophycus M.J. Wynne, 2019
- Genus Delicatophycus M.J. Wynne, 2019
- Genus Encyonema Kützing, 1834
- Genus Encyonemopsis Krammer
- Genus Encyonopsis K. Krammer, 1997
- Species Encyonopsis aequalis (W. Smith) Krammer, 1997
- Species Encyonopsis alpina Krammer & H. Lange-Bertalot
- Species Encyonopsis amatolensis (Giffen) Krammer
- Species Encyonopsis anaktuvukensis (Foged) Krammer
- Species Encyonopsis anassae (Cholnoky) Krammer, 1997
- Species Encyonopsis angusta Krammer & H. Lange-Bertalot
- Species Encyonopsis angustissima (Hustedt) Krammer
- Species Encyonopsis azuleana D. Metzeltin & K. Krammer, 2003
- Species Encyonopsis behrei (Foged) Krammer & Metzeltin
- Species Encyonopsis blanchensis Krammer, 1997
- Species Encyonopsis borapetensis (Foged) Krammer
- Species Encyonopsis braunii (Hustedt) Krammer
- Species Encyonopsis brevistriata (Hustedt) Krammer
- Species Encyonopsis buedeliformis Krammer
- Species Encyonopsis buedelii Krammer
- Species Encyonopsis catharinae H. Lange-Bertalot & Krammer, 2003
- Species Encyonopsis cesatiformis Krammer
- Species Encyonopsis cesatii (Rabenhorst) K. Krammer, 1997
- Species Encyonopsis costaricana H. Lange-Bertalot & Wydrzycka
- Species Encyonopsis cryptocephala Krammer
- Species Encyonopsis degenerata Gerd Moser
- Species Encyonopsis delicatissima (Hustedt) Krammer
- Species Encyonopsis descripta (Hustedt) Krammer
- Species Encyonopsis difficiliformis Krammer
- Species Encyonopsis difficilis (Krasske) Krammer
- Species Encyonopsis dubitabilis H. Lange-Bertalot
- Species Encyonopsis dubitata (Cholnoky) Krammer
- Species Encyonopsis eifelana Krammer
- Species Encyonopsis falaisensiformis Krammer
- Species Encyonopsis falaisensis (Grunow) Krammer, 1997 accepted as Navicula falaisensis Grunow, 1880
- Species Encyonopsis fararama D. Metzeltin & K. Krammer
- Species Encyonopsis floridana Krammer
- Species Encyonopsis fonticola (Hustedt) Krammer
- Species Encyonopsis fragilis Krammer
- Species Encyonopsis frequentiformis D. Metzeltin & K. Krammer
- Species Encyonopsis frequentis Krammer, 1997
- Species Encyonopsis glacialis H. Lange-Bertalot
- Species Encyonopsis gomphonemiformis Krammer
- Species Encyonopsis grunowii Krammer
- Species Encyonopsis kaingensis (Vyverman) Krammer
- Species Encyonopsis kerguelenensis (Germain) Krammer, 1997
- Species Encyonopsis kerguelensis (Germain) K. Krammer, 2003
- Species Encyonopsis kergueliformis Krammer & H. Lange-Bertalot
- Species Encyonopsis krammeri Reichardt
- Species Encyonopsis krammerioides H. Lange-Bertalot & U. Rumrich
- Species Encyonopsis krasskei Krammer
- Species Encyonopsis kriegeri (Krasske) Krammer, 1997
- Species Encyonopsis kurtii Metzeltin
- Species Encyonopsis lanceoelliptica Krammer
- Species Encyonopsis lanceo-elliptica Krammer
- Species Encyonopsis lanceola (Grunow) Krammer, 1997
- Species Encyonopsis lange-bertalotii K. Krammer, 2003
- Species Encyonopsis latarea (Maillard) Krammer, 1997 accepted as Cymbella latarea R. Maillard ex G. Moser, Steindorf & H. Lange-Bertalot, 1995
- Species Encyonopsis lauca H. Lange-Bertalot & Krammer, 2003
- Species Encyonopsis leei K. Krammer, 2003
- Species Encyonopsis linearis Krammer
- Species Encyonopsis mantasoana D. Metzeltin & K. Krammer
- Species Encyonopsis marnieri (Manguin) Krammer
- Species Encyonopsis microcephala (Grunow) Krammer, 1997
- Species Encyonopsis minuta Krammer & E. Reichardt
- Species Encyonopsis moseri Krammer & H. Lange-Bertalot
- Species Encyonopsis muscicola (Schoeman) Krammer
- Species Encyonopsis namibiana Krammer
- Species Encyonopsis naviculoides (Hustedt) Krammer
- Species Encyonopsis neoamphioxis Krammer
- Species Encyonopsis neoamphioxys Krammer
- Species Encyonopsis neogracile
- Species Encyonopsis olifii (Cholnoky) Krammer
- Species Encyonopsis opima (Kociolek & Reviers) Gerd Moser
- Species Encyonopsis orientalis Krammer
- Species Encyonopsis palustris (Hustedt) Krammer
- Species Encyonopsis patagonica H. Lange-Bertalot
- Species Encyonopsis perborealis Krammer
- Species Encyonopsis perfloridana Metzeltin
- Species Encyonopsis petri H. Lange-Bertalot & Krammer
- Species Encyonopsis pfisteri K. Krammer, 2003
- Species Encyonopsis radialis Krammer
- Species Encyonopsis raytonensis (Cholnoky) Krammer
- Species Encyonopsis recta Krammer
- Species Encyonopsis reichardtii Krammer
- Species Encyonopsis reviersiana H. Lange-Bertalot
- Species Encyonopsis rostrata Krammer
- Species Encyonopsis rumrichae Krammer
- Species Encyonopsis ruttneri
- Species Encyonopsis ruttnerii (Hustedt) Krammer
- Species Encyonopsis schneideri Krammer
- Species Encyonopsis schubartii (Hustedt) Krammer
- Species Encyonopsis speciosa H. Lange-Bertalot
- Species Encyonopsis spicula (Hustedt) Krammer
- Species Encyonopsis spiculiformis Krammer
- Species Encyonopsis stodderi (Cleve) Krammer
- Species Encyonopsis subalpina (Hustedt) Krammer
- Species Encyonopsis subcapitata Krammer
- Species Encyonopsis subcryptocephala (Krasske) Krammer
- Species Encyonopsis subfonticola Krammer
- Species Encyonopsis subkerguelensis H. Lange-Bertalot & Krammer, 2003
- Species Encyonopsis subminuta Krammer & E. Reichardt
- Species Encyonopsis subruttneri Krammer
- Species Encyonopsis subspicula Krammer
- Species Encyonopsis substodderi Krammer
- Species Encyonopsis symmetrica Krammer
- Species Encyonopsis tavirana Krammer
- Species Encyonopsis thienemannii (Hustedt) Krammer
- Species Encyonopsis thumensis Krammer
- Species Encyonopsis tiroliana Krammer & H. Lange-Bertalot
- Species Encyonopsis usteri (Krasske) Krammer
- Species Encyonopsis vandamii Krammer & H. Lange-Bertalot
- Species Encyonopsis variostriata (Maillard) Krammer
- Species Encyonopsis yucatanensis (D. Metzeltin & K. Krammer) K. Krammer, 2003
- Genus Eunocymbellarania V. Vinayak, M.K. Goyal & V. Mishra, 2012
- Genus Gomphocymbella O. Müller, 1905
- Genus Gomphocymbellopsis K. Krammer, 2003
- Genus Grachevia L.N. Bukhtiyarova in Bukhtiyarova & Pomazkina, 2013
- Genus Karthickia J.P. Kociolek, A. Glushchenko & M. Kulikovskiy in Glushchenko et al., 2019
- Genus Kurtkrammeria L.L. Bahls, 2015
- Genus Navicella K. Krammer, 1997
- Genus Navicymbula K. Krammer, 2003
- Genus Oricymba I. Jüttner, K. Krammer, E.J. Cox, B. Van de Vijver & A. Tuji in Jüttner, Krammer, Van de Vijver, Tuji, Simkhada, Gurung, Sharma, Sharma & Cox, 2010
- Genus Paraplaconeis M.S. Kulikovskiy, H. Lange-Bertalot & D. Metzeltin in Kulikovskiy, Lange-Bertalot, Metzeltin & Witkowski, 2012
- Genus Placoneis Mereschkowsky, 1903
- Genus Pseudencyonema K. Krammer, 1997
- Genus Pseudocymbopleura G.V. Pomazkina & E.V. Rodionova, 2014
- Genus Pseudoencyonema K. Krammer, 1997 accepted as Pseudencyonema K. Krammer, 1997
- Genus Yasnitskaya E.V. Rodionova & G.V. Pomazkina in Pomazkina & Rodionova, 2014
- Family Cymbellales incertae sedis
- Family Gomphonemataceae Kützing, 1844
- Family Rhoicospheniaceae Chen & Zhu, 1983
- Order Dictyoneidales
- Order Eunotiales
- Order Fragilariales
- Order Licmophorales
- Order Lyrellales
- Order Mastogloiales
- Order Naviculales
- Order Pennales accepted as Bacillariophyceae
- Order Protoraphidales
- Order Rhabdonematales
- Order Rhaphoneidales
- Order Rhopalodiales
- Order Striatellales
- Order Surirellales
- Order Tabellariales
- Order Thalassionematales
- Order Thalassiophysales
- Family Bacillariophyceae incertae sedis
- Class Coscinodiscophyceae
- Class Mediophyceae
- Order Bacillariophyta (awaiting allocation)
- Phylum Bigyra
- Phylum Chrysophyta accepted as Ochrophyta
- Phylum Diatomaceae accepted as Bacillariophyta
- Phylum Eustigmatophyta accepted as Ochrophyta
- Phylum Heterokontophyta accepted as Ochrophyta
- Phylum Hyphochytriomycota accepted as Pseudofungi
- Phylum Labyrinthista accepted as Bigyra
- Phylum Ochrophyta
- Phylum Oomycota accepted as Pseudofungi
- Phylum Phaeophyta accepted as Ochrophyta
- Phylum Pseudofungi
- Phylum Raphidophyta accepted as Ochrophyta
- Phylum Sagenista accepted as Bigyra
- Phylum Xanthophyta accepted as Ochrophyta
- Subphylum Bigyromonada
- Class Bigyromonadea accepted as Developea
- Family Kaonashiidae Weston, Eglit & Simpson, 2023
- Infrakingdom Rhizaria
- Kingdom Fungi
- Kingdom Plantae
- Kingdom Protista accepted as Protozoa
- Kingdom Protozoa
- Kingdom Viruses
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