1. Species Rhaphoneis amphiceros (Ehrenberg) Ehrenberg, 1844
2. Species Rhaphoneis belgica Grunow, 1881
3. Species Rhaphoneis bilineata Grunow & Cleve
4. Species Rhaphoneis castracanii Grunow
5. Species Rhaphoneis gemmifera Ehrenberg
6. Species Rhaphoneis lancettula Grunow
7. Species Rhaphoneis mediterranea Grunow
8. Species Rhaphoneis nitida (Gregory) Grunow, 1868
9. Species Rhaphoneis pretiosa Ehrenberg
10. Species Rhaphoneis fasciolata Ehrenberg, 1844 accepted as Cocconeis fasciolata (Ehrenberg) N.E.Brown, 1920 accepted as Rhaphoneis fasciolata var. fasciolata Ehrenberg, 1844 (synonym)
11. Species Rhaphoneis surirella (Ehrenberg) Grunow, 1881 accepted as Delphineis surirella (Ehrenberg) G.W.Andrews, 1981 † accepted as Zygoceros surirella Ehrenberg, 1840
12. Species Rhaphoneis adamantea Andrews, 1978 (uncertain > unassessed)
13. Species Rhaphoneis affinis Grunow in Pantocsek, 1886 (uncertain > unassessed)
14. Species Rhaphoneis africana Ehrenberg, 1854 (uncertain > unassessed)
15. Species Rhaphoneis angularis Lohman, 1938 (uncertain > unassessed)
16. Species Rhaphoneis angulata Fenner in Schrader & Fenner, 1976 (uncertain > unassessed)
17. Species Rhaphoneis angusta Ehrenberg, 1844 (uncertain > unassessed)
18. Species Rhaphoneis angustata Pantocsek, 1886 (uncertain > unassessed)
19. Species Rhaphoneis archeri O'Meara, 1867 (uncertain > unassessed)
20. Species Rhaphoneis asiatica Brun in Brun & Tempère, 1889 (uncertain > unassessed)
21. Species Rhaphoneis atlantica Andrews, 1989 (uncertain > unassessed)
22. Species Rhaphoneis australis H.L. Smith, 1878 (uncertain > unassessed)
23. Species Rhaphoneis bicuneata Grunow in Cleve & Möller, 1879 (uncertain > unassessed)
24. Species Rhaphoneis biseriata Grunow in Pantocsek, 1886 (uncertain > unassessed)
25. Species Rhaphoneis boeckii (Ehrenberg) L.W. Bailey, 1910 accepted as Cocconema boeckii Ehrenberg, 1838 (uncertain > unassessed)
26. Species Rhaphoneis boryana Pantocsek, 1889 (uncertain > unassessed)
27. Species Rhaphoneis caballeroi Azpeitia y Moros, 1911 (uncertain > unassessed)
28. Species Rhaphoneis caduceus (Ehrenberg) Heurck, 1885 accepted as Sceptroneis caduceus var. caduceus Ehrenberg, 1844 (1845) (uncertain > unassessed)
29. Species Rhaphoneis capensis A. Schmidt, 1894 (uncertain > unassessed)
30. Species Rhaphoneis capitata Andrews, 1978 (uncertain > unassessed)
31. Species Rhaphoneis clavata Andrews, 1978 (uncertain > unassessed)
32. Species Rhaphoneis cocconeides Schrader, 1973 (uncertain > unassessed)
33. Species Rhaphoneis cocconeiformis (Schmidt in Schmidt et al.) Hanna & Grant, 1926 accepted as Coscinodiscus cocconeiformis var. cocconeiformis Schmidt in Schmidt et al., 1878 (uncertain > unassessed)
34. Species Rhaphoneis cocconeis Ehrenberg, 1870 (uncertain > unassessed)
35. Species Rhaphoneis crinigera Takano, 1983 accepted as Cratericulifera crinigera (Takano) Ashworth, Chunlian Li, Hidekazu Suzuki & Witkowski, 2018 (uncertain > unassessed)
36. Species Rhaphoneis crozierii Bailey, 1924 (uncertain > unassessed)
37. Species Rhaphoneis crucifera (Kitton) Hagelstein, 1939 accepted as Amphitetras crucifera Kitton in Ralfs in Pritchard, 1861 (uncertain > unassessed)
38. Species Rhaphoneis debyi Pantocsek, 1886 (uncertain > unassessed)
39. Species Rhaphoneis delicatula Pantocsek, 1886 (uncertain > unassessed)
40. Species Rhaphoneis diamantella Andrews, 1976 (uncertain > unassessed)
41. Species Rhaphoneis digitus Ehrenberg, 1854 (uncertain > unassessed)
42. Species Rhaphoneis discoides Subrahmanyan, 1946 (uncertain > unassessed)
43. Species Rhaphoneis dissita Ehrenberg, 1854 (uncertain > unassessed)
44. Species Rhaphoneis elegans (Pantocsek) Hanna, 1932 accepted as Rhaphoneis gemmifera var. elegans Pantocsek, 1886 (uncertain > unassessed)
45. Species Rhaphoneis elegantula Hustedt, 1952 (uncertain > unassessed)
46. Species Rhaphoneis elliptica Jousé in Proshkina-Lavrenko, 1949 (uncertain > unassessed)
47. Species Rhaphoneis elliptica Schrader in Schrader & Fenner, 1976 (uncertain > unassessed)
48. Species Rhaphoneis elongata G.W.Andrews accepted as Rhaphoneis amphiceros var. elongata Peragallo & Peragallo, 1901 (uncertain > unassessed)
49. Species Rhaphoneis entomon Ehrenberg, 1854 (uncertain > unassessed)
50. Species Rhaphoneis fatula Lohman, 1938 (uncertain > unassessed)
51. Species Rhaphoneis fluminensis Grunow, 1862 (uncertain > unassessed)
52. Species Rhaphoneis foliacea Ehrenberg, 1849 (uncertain > unassessed)
53. Species Rhaphoneis fossile (Grunow) Andrews, 1978 accepted as Dimeregramma fossile Grunow in Pantocsek, 1886 (uncertain > unassessed)
54. Species Rhaphoneis fragilaroidea Patrick, 1944 (uncertain > unassessed)
55. Species Rhaphoneis fuchsii Pantocsek, 1889 (uncertain > unassessed)
56. Species Rhaphoneis fusiformis Andrews, 1978 (uncertain > unassessed)
57. Species Rhaphoneis fusus Ehrenberg, 1844 (uncertain > unassessed)
58. Species Rhaphoneis gangetica Ehrenberg, 1892 (uncertain > unassessed)
59. Species Rhaphoneis granulata Patrick, 1944 (uncertain > unassessed)
60. Species Rhaphoneis gratiosa Hajós, 1968 (uncertain > unassessed)
61. Species Rhaphoneis grossepunctata Hustedt, 1955 (uncertain > unassessed)
62. Species Rhaphoneis grunowii (Frenguelli) Hendey, 1958 accepted as Rhaphoneis surirella var. grunovii Frenguelli, 1928 (uncertain > unassessed)
63. Species Rhaphoneis hauckii Grunow in Cleve & Möller, 1879 (uncertain > unassessed)
64. Species Rhaphoneis hungarica Pantocsek, 1886 (uncertain > unassessed)
65. Species Rhaphoneis indica Ehrenberg, 1845 (uncertain > unassessed)
66. Species Rhaphoneis inflata Hustedt, 1952 (uncertain > unassessed)
67. Species Rhaphoneis intermedia Hajós, 1973 (uncertain > unassessed)
68. Species Rhaphoneis ischaboensis (Grunow) Mertz, 1966 accepted as Fragilaria ischaboensis Grunow in Van Heurck, 1881 (uncertain > unassessed)
69. Species Rhaphoneis itaparicana Zimmermann, 1918 (uncertain > unassessed)
70. Species Rhaphoneis japonica Castracane, 1886 (uncertain > unassessed)
71. Species Rhaphoneis jonesii O'Meara, 1867 (uncertain > unassessed)
72. Species Rhaphoneis kinkerii Pantocsek, 1892 (uncertain > unassessed)
73. Species Rhaphoneis kronowetterii Ehrenberg, 1862 (uncertain > unassessed)
74. Species Rhaphoneis laevigata Ehrenberg, 1854 (uncertain > unassessed)
75. Species Rhaphoneis laevis Ehrenberg, 1854 (uncertain > unassessed)
76. Species Rhaphoneis lanceolata Ehrenberg, 1845 (uncertain > unassessed)
77. Species Rhaphoneis lepta Schrader, 1969 (uncertain > unassessed)
78. Species Rhaphoneis leptoceros (Ehrenberg) Ehrenberg, 1844 accepted as Cocconeis leptoceros Ehrenberg, 1841 (1843) (uncertain > unassessed)
79. Species Rhaphoneis liburnica Grunow, 1862 (uncertain > unassessed)
80. Species Rhaphoneis linearis Grunow in Pantocsek, 1886 (uncertain > unassessed)
81. Species Rhaphoneis lorenziana Grunow, 1862 (uncertain > unassessed)
82. Species Rhaphoneis luciana Cholnoky, 1968 (uncertain > unassessed)
83. Species Rhaphoneis lumen Brun in Brun & Tempère, 1889 (uncertain > unassessed)
84. Species Rhaphoneis lusitanica Rabenhorst, 1864 (uncertain > unassessed)
85. Species Rhaphoneis maculata Cleve, 1883 (uncertain > unassessed)
86. Species Rhaphoneis maeotica (Milovanova) Sheshukova-Poretskaya & Gleser, 1962 accepted as Fragilaria maeotica Milovanova, 1955 (uncertain > unassessed)
87. Species Rhaphoneis magnapunctata Andrews, 1978 (uncertain > unassessed)
88. Species Rhaphoneis mammalis Castracane, 1886 (uncertain > unassessed)
89. Species Rhaphoneis margaritalimbata Mertz, 1966 (uncertain > unassessed)
90. Species Rhaphoneis margaritata Andrews, 1978 (uncertain > unassessed)
91. Species Rhaphoneis mascarenae Giffen, 1980 (uncertain > unassessed)
92. Species Rhaphoneis mediopunctata Hajós, 1968 (uncertain > unassessed)
93. Species Rhaphoneis mertzi Hajós, 1973 (uncertain > unassessed)
94. Species Rhaphoneis mica Hohn & Hellerman, 1966 (uncertain > unassessed)
95. Species Rhaphoneis minutissima Hustedt, 1939 (uncertain > unassessed)
96. Species Rhaphoneis miocenica Schrader, 1973 (uncertain > unassessed)
97. Species Rhaphoneis mirabunda Giffen, 1963 (uncertain > unassessed)
98. Species Rhaphoneis moorii O'Meara, 1867 (uncertain > unassessed)
99. Species Rhaphoneis moravica (Grunow) G.W.Andrews accepted as Rhaphoneis gemmifera var. moravica Grunow in Pantocsek, 1886 (uncertain > unassessed)
100. Species Rhaphoneis morsiana Grunow in Pantocsek, 1886 (uncertain > unassessed)
101. Species Rhaphoneis nana Ehrenberg, 1872 (1873) (uncertain > unassessed)
102. Species Rhaphoneis nodulifera (Grove & Sturt) Schmidt in Schmidt et al., 1894 accepted as Cocconeis nodulifera Grove & Sturt, 1887 (uncertain > unassessed)
103. Species Rhaphoneis obesa Hanna, 1932 (uncertain > unassessed)
104. Species Rhaphoneis obesula Hanna, 1932 (uncertain > unassessed)
105. Species Rhaphoneis oregonica Ehrenberg, 1844 (uncertain > unassessed)
106. Species Rhaphoneis orientalis Hendey, 1939 (uncertain > unassessed)
107. Species Rhaphoneis ossiformis Schrader in Schrader & Fenner, 1976 (uncertain > unassessed)
108. Species Rhaphoneis ovalis Korotkevich, 1957 (uncertain > unassessed)
109. Species Rhaphoneis parallelica Schrader in Schrader & Fenner, 1976 (uncertain > unassessed)
110. Species Rhaphoneis parcepunctata (Pantocsek & Grunow) Andrews, 1975 (uncertain > unassessed)
111. Species Rhaphoneis parvula Andrews, 1978 (uncertain > unassessed)
112. Species Rhaphoneis perspicua Sheshukova-Poretzkaya, 1959 (uncertain > unassessed)
113. Species Rhaphoneis petropolitana Grunow in Pantocsek, 1886 (uncertain > unassessed)
114. Species Rhaphoneis pinnularia Tempère & Brun in Brun & Tempère, 1889 (uncertain > unassessed)
115. Species Rhaphoneis praeparilis Andrews, 1987 (uncertain > unassessed)
116. Species Rhaphoneis psammicola Riznyk, 1973 (uncertain > unassessed)
117. Species Rhaphoneis quarnerensis Grunow, 1862 (uncertain > unassessed)
118. Species Rhaphoneis rhombica (Grunow) Andrews, 1975 accepted as Rhaphoneis amphiceros f. rhombica Grunow in Van Heurck, 1881 (uncertain > unassessed)
119. Species Rhaphoneis rhomboides Ehrenberg, 1854 (uncertain > unassessed)
120. Species Rhaphoneis rhombus Ehrenberg, 1854 (uncertain > unassessed)
121. Species Rhaphoneis robustata Schrader in Schrader & Fenner, 1976 (uncertain > unassessed)
122. Species Rhaphoneis rostrata Ehrenberg, 1856 (uncertain > unassessed)
123. Species Rhaphoneis sachalinensis Sheshukova-Poretskaya, 1967 (uncertain > unassessed)
124. Species Rhaphoneis scalaris Ehrenberg, 1844 (1845) (uncertain > unassessed)
125. Species Rhaphoneis schulzii Anissimova ex Proschkina-Lavrenko, 1949 (uncertain > unassessed)
126. Species Rhaphoneis scutelloides Grunow, 1862 (uncertain > unassessed)
127. Species Rhaphoneis scutellum Ehrenberg, 1844 (uncertain > unassessed)
128. Species Rhaphoneis scutula Andrews, 1978 (uncertain > unassessed)
129. Species Rhaphoneis setacea Ehrenberg, 1854 (uncertain > unassessed)
130. Species Rhaphoneis simbirskiana Grunow in Pantocsek, 1886 (uncertain > unassessed)
131. Species Rhaphoneis similis Hustedt, 1952 (uncertain > unassessed)
132. Species Rhaphoneis suborbicularis O'Meara, 1867 (uncertain > unassessed)
133. Species Rhaphoneis subtilissima Pantocsek, 1886 (uncertain > unassessed)
134. Species Rhaphoneis surirelloides Simonsen, 1974 (uncertain > unassessed)
135. Species Rhaphoneis tatsunokuchiensis Koizumi, 1972 (uncertain > unassessed)
136. Species Rhaphoneis tenuis Hustedt, 1952 (uncertain > unassessed)
137. Species Rhaphoneis triangularis Hajós, 1968 (uncertain > unassessed)
138. Species Rhaphoneis wetzeli Mertz, 1966 (uncertain > unassessed)

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